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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for lhx1a+lhx1b

Z-value: 0.57

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Transcription factors associated with lhx1a+lhx1b

Gene Symbol Gene ID Gene Info
ENSDARG00000007944 LIM homeobox 1b
ENSDARG00000014018 LIM homeobox 1a
ENSDARG00000111635 LIM homeobox 1b

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
lhx1adr11_v1_chr15_-_27710513_277105750.701.1e-03Click!
lhx1bdr11_v1_chr5_+_56268436_562684360.681.7e-03Click!

Activity profile of lhx1a+lhx1b motif

Sorted Z-values of lhx1a+lhx1b motif

Promoter Log-likelihood Transcript Gene Gene Info
chr5_+_38040407 1.72 ENSDART00000139936
si:dkey-111e8.4
chr3_+_39853788 1.66 ENSDART00000154869
calcium channel, voltage-dependent, T type, alpha 1H subunit a
chr18_+_46382484 1.61 ENSDART00000024202
ENSDART00000142790
dynein assembly factor with WDR repeat domains 1
chr8_+_43340995 1.40 ENSDART00000038566
refilin A
chr11_-_2838699 1.35 ENSDART00000066189
LHFPL tetraspan subfamily member 5a
chr24_-_26328721 1.26 ENSDART00000125468
apolipoprotein Db
chr15_-_20939579 1.22 ENSDART00000152371
ubiquitin specific peptidase 2a
chr12_+_45200744 1.08 ENSDART00000098932
WW domain binding protein 2
chr12_+_7497882 1.05 ENSDART00000134608
phytanoyl-CoA 2-hydroxylase interacting protein-like b
chr6_-_21582444 1.01 ENSDART00000151339
si:dkey-43k4.3
chr17_+_15433518 0.95 ENSDART00000026180
fatty acid binding protein 7, brain, a
chr16_-_28856112 0.93 ENSDART00000078543
synaptotagmin XIb
chr17_+_15433671 0.85 ENSDART00000149568
fatty acid binding protein 7, brain, a
chr7_+_20471315 0.81 ENSDART00000173714
si:dkey-19b23.13
chr22_-_24285432 0.79 ENSDART00000164083
si:ch211-117l17.4
chr11_-_25733910 0.79 ENSDART00000171935
bromodomain and PHD finger containing, 3a
chr19_+_43297546 0.78 ENSDART00000168002
lysosomal protein transmembrane 5
chr3_+_45687266 0.76 ENSDART00000131652
G protein-coupled receptor 146
chr13_-_9450210 0.73 ENSDART00000133768
Pim proto-oncogene, serine/threonine kinase, related 152
chr20_-_45812144 0.73 ENSDART00000147897
ENSDART00000147637
fermitin family member 1
chr7_-_52388734 0.70 ENSDART00000174186
WD repeat domain 93
chr1_-_669717 0.69 ENSDART00000160564
cysteine/tyrosine-rich 1
chr5_+_2815021 0.68 ENSDART00000020472
4-hydroxyphenylpyruvate dioxygenase a
chr3_-_31619463 0.65 ENSDART00000124559
minamoto
chr25_+_22296666 0.63 ENSDART00000138887
ENSDART00000193410
cytochrome P450, family 11, subfamily A, polypeptide 2
chr4_+_9669717 0.61 ENSDART00000004604
si:dkey-153k10.9
chr3_+_36424055 0.61 ENSDART00000170318
si:ch1073-443f11.2
chr12_-_35830625 0.59 ENSDART00000180028

chr18_-_17485419 0.58 ENSDART00000018764
forkhead box L1
chr20_+_25586099 0.57 ENSDART00000063122
ENSDART00000134047
cytochrome P450, family 2, subfamily P, polypeptide 10
chr4_-_9891874 0.56 ENSDART00000067193
adrenomedullin 2a
chr24_-_38657683 0.53 ENSDART00000154843
si:ch1073-164k15.3
chr23_-_16485190 0.53 ENSDART00000155038
si:dkeyp-100a5.4
chr4_+_72723304 0.50 ENSDART00000186791
ENSDART00000158902
ENSDART00000191925
RAB3A interacting protein (rabin3)
chr6_+_17053650 0.50 ENSDART00000155296
Pim proto-oncogene, serine/threonine kinase, related 16
chr16_-_12173554 0.48 ENSDART00000110567
ENSDART00000155935
calsyntenin 3
chr4_+_16885854 0.45 ENSDART00000017726
ethanolamine kinase 1
chr4_+_57881965 0.45 ENSDART00000162234
si:dkeyp-44b5.4
chr9_-_47472998 0.44 ENSDART00000134480
tensin 1b
chr14_+_44794936 0.44 ENSDART00000128881
zgc:195212
chr20_-_9095105 0.43 ENSDART00000140792
OMA1 zinc metallopeptidase
chr15_+_9861973 0.43 ENSDART00000170945
si:dkey-13m3.2
chr21_-_25801956 0.42 ENSDART00000101219
methyltransferase like 27
chr20_+_11731039 0.40 ENSDART00000152215
ENSDART00000152585
si:ch211-155o21.3
chr2_-_30668580 0.40 ENSDART00000087270
catenin (cadherin-associated protein), delta 2b
chr21_-_13972745 0.40 ENSDART00000143874
AT-hook transcription factor
chr1_+_10318089 0.39 ENSDART00000029774
phosphatidylinositol-4,5-bisphosphate 4-phosphatase 1b
chr13_+_646700 0.39 ENSDART00000006892
tumor protein p53 binding protein, 2a
chr16_-_12173399 0.39 ENSDART00000142574
calsyntenin 3
chr9_+_28598577 0.38 ENSDART00000142623
ENSDART00000135947
si:ch73-7i4.1
chr24_-_31425799 0.36 ENSDART00000157998
cyclic nucleotide gated channel beta 3, tandem duplicate 1
chr22_-_12160283 0.35 ENSDART00000146785
ENSDART00000128176
transmembrane protein 163b
chr21_+_25802190 0.34 ENSDART00000128987
neurofibromin 2b (merlin)
chr20_+_35438300 0.33 ENSDART00000102504
ENSDART00000153249
tudor domain containing 6
chr6_+_11989537 0.32 ENSDART00000190817
bromodomain adjacent to zinc finger domain, 2Ba
chr6_+_7444899 0.32 ENSDART00000053775
ADP-ribosylation factor 3b
chr9_-_14504834 0.32 ENSDART00000056103
neuropilin 2b
chr22_-_5252005 0.31 ENSDART00000132942
ENSDART00000081801
nicalin
chr22_+_19552987 0.30 ENSDART00000105315
hydroxysteroid (11-beta) dehydrogenase 1-like a
chr20_+_6035427 0.29 ENSDART00000054086
thyroid stimulating hormone receptor
chr8_-_45760087 0.29 ENSDART00000025620
peptidylprolyl isomerase Aa (cyclophilin A)
chr12_-_6880694 0.28 ENSDART00000171846
protocadherin-related 15b
chr7_-_38658411 0.28 ENSDART00000109463
ENSDART00000017155
nephrosin
chr9_+_34641237 0.27 ENSDART00000133996
short stature homeobox
chr2_+_38373272 0.26 ENSDART00000113111
proteasome subunit beta 5
chr2_+_42072231 0.26 ENSDART00000084517
valosin containing protein (p97)/p47 complex interacting protein 1
chr4_+_77943184 0.24 ENSDART00000159094
protein kinase C and casein kinase substrate in neurons 2
chr3_-_15999501 0.24 ENSDART00000160668
NME/NM23 nucleoside diphosphate kinase 3
chr24_-_40860603 0.23 ENSDART00000188032

chr15_-_22074315 0.23 ENSDART00000149830
dopamine receptor D2a
chr10_-_11261565 0.23 ENSDART00000146727
polypyrimidine tract binding protein 3
chr22_-_19552796 0.23 ENSDART00000148088
ENSDART00000105485
si:dkey-78l4.14
chr24_+_13316737 0.22 ENSDART00000191658
somatomedin B and thrombospondin type 1 domain containing
chr17_+_45405821 0.22 ENSDART00000189482
ENSDART00000177422
T cell activation RhoGTPase activating protein a
chr2_+_2223837 0.21 ENSDART00000101038
ENSDART00000129354
transmembrane inner ear
chr23_-_4409668 0.21 ENSDART00000081823
si:ch73-142c19.1
chr21_-_20939488 0.19 ENSDART00000039043
regulator of G protein signaling 7 binding protein b
chr1_+_51039558 0.19 ENSDART00000024743
dpy-30 histone methyltransferase complex regulatory subunit
chr16_+_2820340 0.18 ENSDART00000092299
ENSDART00000192931
ENSDART00000148512
si:dkey-288i20.2
chr3_-_29941357 0.18 ENSDART00000147732
ENSDART00000137973
ENSDART00000103523
granulin a
chr10_-_11261386 0.17 ENSDART00000189946
polypyrimidine tract binding protein 3
chr3_-_48716422 0.17 ENSDART00000164979
si:ch211-114m9.1
chr1_-_45616470 0.17 ENSDART00000150165
activating transcription factor 7 interacting protein
chr6_-_43677125 0.16 ENSDART00000150128
forkhead box P1b
chr1_+_21731382 0.16 ENSDART00000054395
paired box 5
chr20_-_40755614 0.16 ENSDART00000061247
connexin 32.3
chr2_-_16217344 0.15 ENSDART00000152031
Rho guanine nucleotide exchange factor (GEF) 4
chr14_-_413273 0.15 ENSDART00000163976
ENSDART00000179907
FAT atypical cadherin 4
chr1_+_6172786 0.14 ENSDART00000126468
protein kinase, AMP-activated, gamma 3a non-catalytic subunit
chr10_+_16584382 0.13 ENSDART00000112039

chr11_-_41853874 0.13 ENSDART00000002556
MRT4 homolog, ribosome maturation factor
chr22_+_19553390 0.13 ENSDART00000061739
hydroxysteroid (11-beta) dehydrogenase 1-like a
chr3_-_32818607 0.13 ENSDART00000075465
myosin light chain, phosphorylatable, fast skeletal muscle a
chr7_+_22809905 0.13 ENSDART00000166900
ENSDART00000143455
ENSDART00000126037
splicing factor 1
chr10_+_42423318 0.12 ENSDART00000134282
neuropeptide Y receptor Y8a
chr4_-_2219705 0.12 ENSDART00000131046
si:ch73-278m9.1
chr23_-_1660708 0.11 ENSDART00000175138

chr22_-_8725768 0.11 ENSDART00000189873
ENSDART00000181819
si:ch73-27e22.1
si:ch73-27e22.8
chr9_-_9415000 0.10 ENSDART00000146210
si:ch211-214p13.9
chr6_-_30839763 0.10 ENSDART00000154228
SH3-domain GRB2-like (endophilin) interacting protein 1a
chr2_+_20406399 0.10 ENSDART00000006817
ENSDART00000137848
palmdelphin a
chr5_-_38094130 0.10 ENSDART00000131831
si:ch211-284e13.4
chr3_-_19368435 0.09 ENSDART00000132987
sphingosine-1-phosphate receptor 5a
chr21_-_35419486 0.09 ENSDART00000138529
si:dkeyp-23e4.3
chr3_-_56541723 0.09 ENSDART00000156398
ENSDART00000050576
ENSDART00000184874
si:ch211-189a21.1
cytohesin 1a
chr22_-_36530902 0.09 ENSDART00000056188
info polymerase (RNA) II (DNA directed) polypeptide H
chr9_+_37152564 0.08 ENSDART00000189497
GLI family zinc finger 2a
chr4_+_52212057 0.08 ENSDART00000165627
zinc finger protein 1034
chr8_-_53044300 0.08 ENSDART00000191653
nuclear receptor subfamily 6, group A, member 1a
chr15_-_14552101 0.08 ENSDART00000171169
numb homolog (Drosophila)-like
chr18_+_8320165 0.07 ENSDART00000092053
choline kinase beta
chr6_+_39905021 0.07 ENSDART00000064904
endonuclease, polyU-specific
chr7_+_27317174 0.07 ENSDART00000193058
SRY (sex determining region Y)-box 6
chr22_-_28226948 0.07 ENSDART00000147686
si:dkey-222p3.1
chr21_-_39327223 0.07 ENSDART00000115097
apoptosis-inducing factor, mitochondrion-associated, 5
chr4_-_1801519 0.05 ENSDART00000188604
ENSDART00000135749
nudix (nucleoside diphosphate linked moiety X)-type motif 4b
chr12_+_13118540 0.05 ENSDART00000077840
ENSDART00000127870
calymmin
chr24_-_35767501 0.05 ENSDART00000105680
ENSDART00000042290
ENSDART00000166264
dystrobrevin, alpha
chr24_+_28953089 0.05 ENSDART00000153761
RNA-binding region (RNP1, RRM) containing 3
chr13_-_12602920 0.04 ENSDART00000102311
leucine-rich repeat, immunoglobulin-like and transmembrane domains 3b
chr23_-_31969786 0.04 ENSDART00000134550
ORMDL sphingolipid biosynthesis regulator 2
chr12_-_48006835 0.04 ENSDART00000108989
ADAM metallopeptidase with thrombospondin type 1 motif, 14
chr17_-_10122204 0.04 ENSDART00000160751

chr25_-_13490744 0.04 ENSDART00000056721
lactate dehydrogenase D
chr12_+_16168342 0.04 ENSDART00000079326
ENSDART00000170024
low density lipoprotein receptor-related protein 2b
chr16_+_23303859 0.03 ENSDART00000006093
solute carrier family 50 (sugar efflux transporter), member 1
chr12_-_17712393 0.03 ENSDART00000143534
ENSDART00000010144
parvalbumin 2
chr23_+_4689626 0.03 ENSDART00000131532
glycoprotein IX (platelet)
chr16_-_16761164 0.02 ENSDART00000135872
si:dkey-27n14.1
chr8_-_53926228 0.01 ENSDART00000015554
UbiA prenyltransferase domain containing 1
chr25_+_4751879 0.01 ENSDART00000169465
si:zfos-2372e4.1
chr1_-_21287724 0.01 ENSDART00000193900
neuropeptide Y receptor Y1
chr21_+_42717424 0.01 ENSDART00000166936
ENSDART00000172135
SH3 and PX domains 2B
chr19_+_2631565 0.01 ENSDART00000171487
family with sequence similarity 126, member A
chr6_-_35052388 0.01 ENSDART00000181000
ENSDART00000170116
UDP-N-acetylglucosamine pyrophosphorylase 1
chr3_+_3681116 0.01 ENSDART00000109618
ADP-ribosyltransferase 4 (Dombrock blood group)
chr5_-_30620625 0.00 ENSDART00000098273
transcobalamin like
chr8_-_12867434 0.00 ENSDART00000081657
solute carrier family 2 (facilitated glucose transporter), member 6

Network of associatons between targets according to the STRING database.

First level regulatory network of lhx1a+lhx1b

PNG image of the network

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Log-likelihood per target  Total log-likelihood Term Description
0.5 1.4 GO:0032331 negative regulation of chondrocyte differentiation(GO:0032331) negative regulation of cartilage development(GO:0061037) negative regulation of chondrocyte development(GO:0061182) regulation of bone mineralization involved in bone maturation(GO:1900157) negative regulation of bone mineralization involved in bone maturation(GO:1900158) negative regulation of bone development(GO:1903011)
0.1 0.7 GO:0006572 tyrosine catabolic process(GO:0006572)
0.1 1.7 GO:0086010 membrane depolarization during action potential(GO:0086010)
0.1 0.9 GO:0051965 positive regulation of synapse assembly(GO:0051965)
0.1 0.7 GO:0007141 male meiosis I(GO:0007141)
0.1 1.6 GO:0060285 cilium or flagellum-dependent cell motility(GO:0001539) cilium-dependent cell motility(GO:0060285)
0.1 0.3 GO:0048313 organelle inheritance(GO:0048308) Golgi inheritance(GO:0048313)
0.1 0.3 GO:0038107 nodal signaling pathway involved in determination of left/right asymmetry(GO:0038107) regulation of nodal signaling pathway involved in determination of left/right asymmetry(GO:1900145)
0.1 0.8 GO:0044154 histone H3-K14 acetylation(GO:0044154)
0.1 0.4 GO:0042138 meiotic DNA double-strand break formation(GO:0042138)
0.1 0.4 GO:1990845 adaptive thermogenesis(GO:1990845)
0.0 1.6 GO:0060122 inner ear receptor stereocilium organization(GO:0060122)
0.0 0.2 GO:0099563 modification of synaptic structure(GO:0099563)
0.0 1.3 GO:0007568 aging(GO:0007568)
0.0 0.4 GO:0051898 negative regulation of protein kinase B signaling(GO:0051898)
0.0 1.1 GO:0045815 positive regulation of gene expression, epigenetic(GO:0045815)
0.0 0.3 GO:0030719 P granule organization(GO:0030719)
0.0 0.3 GO:0071678 olfactory bulb axon guidance(GO:0071678)
0.0 1.2 GO:0014046 dopamine secretion(GO:0014046) regulation of dopamine secretion(GO:0014059)
0.0 0.2 GO:0070836 membrane raft assembly(GO:0001765) plasma membrane raft assembly(GO:0044854) plasma membrane raft organization(GO:0044857) caveola assembly(GO:0070836)
0.0 0.3 GO:0050962 detection of light stimulus involved in visual perception(GO:0050908) detection of light stimulus involved in sensory perception(GO:0050962)
0.0 0.6 GO:0042181 ketone biosynthetic process(GO:0042181)
0.0 0.2 GO:0071340 skeletal muscle acetylcholine-gated channel clustering(GO:0071340)
0.0 0.3 GO:0045762 activation of adenylate cyclase activity(GO:0007190) positive regulation of cAMP metabolic process(GO:0030816) positive regulation of cAMP biosynthetic process(GO:0030819) positive regulation of adenylate cyclase activity(GO:0045762)
0.0 0.1 GO:0048618 post-embryonic foregut morphogenesis(GO:0048618)
0.0 0.2 GO:0060118 vestibular receptor cell differentiation(GO:0060114) vestibular receptor cell development(GO:0060118)
0.0 0.2 GO:0046051 UTP biosynthetic process(GO:0006228) UTP metabolic process(GO:0046051)
0.0 0.4 GO:0060997 dendritic spine morphogenesis(GO:0060997)
0.0 0.0 GO:0006089 lactate metabolic process(GO:0006089)
0.0 0.5 GO:0051904 melanosome transport(GO:0032402) pigment granule transport(GO:0051904)
0.0 0.2 GO:0090308 methylation-dependent chromatin silencing(GO:0006346) positive regulation of chromatin silencing(GO:0031937) regulation of methylation-dependent chromatin silencing(GO:0090308) positive regulation of methylation-dependent chromatin silencing(GO:0090309)
0.0 0.4 GO:0006829 zinc II ion transport(GO:0006829)
0.0 0.6 GO:0042737 drug metabolic process(GO:0017144) drug catabolic process(GO:0042737) exogenous drug catabolic process(GO:0042738)
0.0 0.1 GO:1901910 diphosphoinositol polyphosphate metabolic process(GO:0071543) diadenosine pentaphosphate metabolic process(GO:1901906) diadenosine pentaphosphate catabolic process(GO:1901907) diadenosine hexaphosphate metabolic process(GO:1901908) diadenosine hexaphosphate catabolic process(GO:1901909) adenosine 5'-(hexahydrogen pentaphosphate) metabolic process(GO:1901910) adenosine 5'-(hexahydrogen pentaphosphate) catabolic process(GO:1901911)
0.0 0.0 GO:0090155 regulation of sphingolipid biosynthetic process(GO:0090153) negative regulation of sphingolipid biosynthetic process(GO:0090155) negative regulation of ceramide biosynthetic process(GO:1900060) regulation of membrane lipid metabolic process(GO:1905038) regulation of ceramide biosynthetic process(GO:2000303)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 0.5 GO:0070319 Golgi to plasma membrane transport vesicle(GO:0070319)
0.1 0.3 GO:0033391 chromatoid body(GO:0033391)
0.1 1.7 GO:0034706 voltage-gated sodium channel complex(GO:0001518) sodium channel complex(GO:0034706)
0.0 0.8 GO:0070776 H3 histone acetyltransferase complex(GO:0070775) MOZ/MORF histone acetyltransferase complex(GO:0070776)
0.0 0.1 GO:0019815 B cell receptor complex(GO:0019815)
0.0 0.4 GO:0098563 integral component of synaptic vesicle membrane(GO:0030285) intrinsic component of synaptic vesicle membrane(GO:0098563)
0.0 1.4 GO:0032432 actin filament bundle(GO:0032432)
0.0 0.7 GO:0030964 mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271)
0.0 0.3 GO:0032420 stereocilium(GO:0032420)
0.0 0.1 GO:0031588 nucleotide-activated protein kinase complex(GO:0031588)
0.0 0.0 GO:0035339 SPOTS complex(GO:0035339)
0.0 0.2 GO:0048188 Set1C/COMPASS complex(GO:0048188)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.3 1.4 GO:0031005 filamin binding(GO:0031005)
0.2 1.7 GO:0008332 low voltage-gated calcium channel activity(GO:0008332)
0.2 0.7 GO:0003868 4-hydroxyphenylpyruvate dioxygenase activity(GO:0003868)
0.1 1.8 GO:0005504 fatty acid binding(GO:0005504)
0.1 0.8 GO:0010484 H3 histone acetyltransferase activity(GO:0010484) histone acetyltransferase activity (H3-K23 specific)(GO:0043994)
0.0 0.4 GO:0034597 phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity(GO:0034597)
0.0 0.1 GO:0033130 acetylcholine receptor binding(GO:0033130)
0.0 0.3 GO:0005021 vascular endothelial growth factor-activated receptor activity(GO:0005021)
0.0 0.4 GO:0043855 intracellular cyclic nucleotide activated cation channel activity(GO:0005221) intracellular cAMP activated cation channel activity(GO:0005222) intracellular cGMP activated cation channel activity(GO:0005223) cyclic nucleotide-gated ion channel activity(GO:0043855)
0.0 0.8 GO:0004198 calcium-dependent cysteine-type endopeptidase activity(GO:0004198)
0.0 0.3 GO:0016500 protein-hormone receptor activity(GO:0016500)
0.0 0.4 GO:0002039 p53 binding(GO:0002039)
0.0 0.9 GO:0001786 phosphatidylserine binding(GO:0001786)
0.0 0.3 GO:0016018 cyclosporin A binding(GO:0016018)
0.0 0.2 GO:0001591 dopamine neurotransmitter receptor activity, coupled via Gi/Go(GO:0001591)
0.0 1.1 GO:0031490 chromatin DNA binding(GO:0031490)
0.0 0.4 GO:0016229 steroid dehydrogenase activity(GO:0016229)
0.0 0.3 GO:0004298 threonine-type endopeptidase activity(GO:0004298) threonine-type peptidase activity(GO:0070003)
0.0 0.1 GO:0038036 sphingosine-1-phosphate receptor activity(GO:0038036)
0.0 0.7 GO:0005178 integrin binding(GO:0005178)
0.0 0.0 GO:0030626 U12 snRNA binding(GO:0030626)
0.0 1.5 GO:0004843 thiol-dependent ubiquitin-specific protease activity(GO:0004843) thiol-dependent ubiquitinyl hydrolase activity(GO:0036459) ubiquitinyl hydrolase activity(GO:0101005)
0.0 0.1 GO:0034432 endopolyphosphatase activity(GO:0000298) diphosphoinositol-polyphosphate diphosphatase activity(GO:0008486) bis(5'-adenosyl)-hexaphosphatase activity(GO:0034431) bis(5'-adenosyl)-pentaphosphatase activity(GO:0034432)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.3 PID ARF6 PATHWAY Arf6 signaling events

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.5 REACTOME SYNTHESIS OF PE Genes involved in Synthesis of PE
0.0 0.3 REACTOME HORMONE LIGAND BINDING RECEPTORS Genes involved in Hormone ligand-binding receptors