GWAS

(GWAS data used on the Zebrafish Mutation Project Web site comes from http://www.genome.gov/gwastudies/.)

Hundreds of variants clustered in genomic loci and biological pathways affect human height.

The human homologues of the following genes have been identified in this study:

Gene name Reported Gene Ensembl ID Alleles found Associated phenotype Study Count
ACAN (2 of 2) ACAN ENSDARG00000045799 1 Not determined 3
acana ACAN ENSDARG00000035891 1 Not determined 3
adam28 ADAM28 ENSDARG00000035514 1 Not determined 1
ADAMTS17 ADAMTS17 ENSDARG00000075555 None Not determined 2
ADAMTSL3 ADAMTSL3 ENSDARG00000027903 6 Not determined 8
ANKRD13B ANKRD13B ENSDARG00000014652 3 Not determined 1
bmp2a BMP2 ENSDARG00000013409 None Not determined 7
bmp2b BMP2 ENSDARG00000041430 1 Not determined 7
bmp6 BMP6 ENSDARG00000015686 None Not determined 4
bnc2 BNC2 ENSDARG00000069989 2 Not determined 3
bod1 BOD1 ENSDARG00000035747 None Not determined 1
C3orf63 (2 of 2) C3orf63 ENSDARG00000089893 3 Not determined 1
CASKIN1 (2 of 3) CASKIN1 ENSDARG00000020489 1 Not determined 1
CASKIN1 (1 of 3) CASKIN1 ENSDARG00000046107 4 Not determined 1
ccdc3 CCDC3 ENSDARG00000026052 None Not determined 1
cdc42ep1 CDC42EP3 ENSDARG00000062390 None Not determined 2
clic4 CLIC4 ENSDARG00000022995 None Not determined 1
cpn1 CPN1 ENSDARG00000005185 1 Not determined 4
cyp19a1a CYP19A1 ENSDARG00000041348 1 Not determined 6
cyp19a1b CYP19A1 ENSDARG00000009852 2 Not determined 6
dhh IHH ENSDARG00000037062 None Not determined 4
dnajc27 DNAJC27 ENSDARG00000070916 1 Not determined 4
DOCK3 DOCK3 ENSDARG00000063180 7 Not determined 1
dot1l DOT1L ENSDARG00000061992 5 Normal 3
dtl DTL ENSDARG00000023002 1 Not determined 1
eif2ak3 EIF2AK3 ENSDARG00000062139 2 Normal 2
esr1 ESR1 ENSDARG00000004111 None Not determined 14
ETV6 ETV6 ENSDARG00000069193 1 Not determined 2
fam46a FAM46A ENSDARG00000054641 None Not determined 3
fbxw11a FBXW11 ENSDARG00000028543 1 Not determined 1
fbxw11b FBXW11 ENSDARG00000017230 None Not determined 1
fer FER ENSDARG00000012196 1 Not determined 2
fli1a FLI1 ENSDARG00000054632 1 Not determined 3
fli1b FLI1 ENSDARG00000040080 None Not determined 3
frs2 FRS2 ENSDARG00000037353 None Not determined 3
gdf5 GDF5 ENSDARG00000002760 1 Not determined 5
gdf7 GDF5 ENSDARG00000042784 None Not determined 5
gfpt2 GFPT2 ENSDARG00000044094 1 Not determined 1
ghsra GHSR ENSDARG00000056230 1 Not determined 1
ghsrb GHSR ENSDARG00000057117 None Not determined 1
gipc2 GIPC2 ENSDARG00000009488 None Not determined 1
gna12 GNA12 ENSDARG00000025826 None Not determined 7
GPC5 GPC5 ENSDARG00000088858 None Not determined 9
gpr126 GPR126 ENSDARG00000054137 3 1 phenotype 9
gro1 TLE3 ENSDARG00000069006 3 Not determined 1
gro2 TLE3 ENSDARG00000002787 7 Not determined 1
HDAC11 (2 of 2) HDAC11 ENSDARG00000087573 None Not determined 1
hhip HHIP ENSDARG00000060397 1 Not determined 13
hmga1 HMGA1 ENSDARG00000028335 1 Not determined 9
hmga2 HMGA2 ENSDARG00000069912 None Not determined 18
hsp47 SERPINH1 ENSDARG00000019949 None Not determined 2
htr1bd HTR1D ENSDARG00000054124 1 Not determined 1
id4 ID4 ENSDARG00000045131 None Not determined 3
igf1ra IGF1R ENSDARG00000027423 1 Not determined 3
igf1rb IGF1R ENSDARG00000034434 5 Not determined 3
igf2bp2a IGF2BP2 ENSDARG00000003421 1 Not determined 12
igf2bp2b IGF2BP2 ENSDARG00000061661 2 Not determined 12
igf2bp3 IGF2BP3 ENSDARG00000010266 1 Not determined 1
ihha IHH ENSDARG00000058733 1 Normal 4
ihhb IHH ENSDARG00000058815 1 Not determined 4
im:7151275 PPIF ENSDARG00000052842 None Not determined 1
insra INSR ENSDARG00000011948 2 Normal 6
insrb INSR ENSDARG00000071524 2 Not determined 6
ippk IPPK ENSDARG00000003446 1 Not determined 1
jazf1a JAZF1 ENSDARG00000036243 1 Not determined 8
jazf1b JAZF1 ENSDARG00000056793 None Not determined 8
kcnq1 KCNQ1 ENSDARG00000059798 1 Not determined 15
KCNQ1 KCNQ1 ENSDARG00000091599 None Not determined 15
LIN28B LIN28B ENSDARG00000052511 None Not determined 11
LOC100000685 SLC22A5 ENSDARG00000068603 2 Not determined 5
LOC100147893 CASKIN1 ENSDARG00000068462 None Not determined 1
LOC100148903 HDAC11 ENSDARG00000086132 None Not determined 1
LOC100330676 FAM46A ENSDARG00000037183 1 Not determined 3
LOC100332329 MYO9B ENSDARG00000074413 None Not determined 1
LOC100332567 EFEMP1 ENSDARG00000059121 None Not determined 8
LOC100332569 ZBTB24 ENSDARG00000075533 None Not determined 2
LOC100333103 NOG ENSDARG00000053528 None Not determined 3
LOC100334628 CEP120 ENSDARG00000091326 1 Not determined 1
LOC100334642 CASKIN1 ENSDARG00000090611 None Not determined 1
LOC100334833 HMGA2 ENSDARG00000091038 None Not determined 18
LOC559077 SENP6 ENSDARG00000079992 2 Not determined 1
LOC559603 QSOX2 ENSDARG00000077174 2 Normal 2
LOC559723 TGFB2 ENSDARG00000071879 1 Not determined 2
LOC562072 LTBP1 ENSDARG00000056922 8 Not determined 4
LOC568788 ADAMTS3 ENSDARG00000060127 1 Not determined 4
LOC569146 KCNJ12 ENSDARG00000059822 None Not determined 1
LOC569515 CDK6 ENSDARG00000030163 1 Not determined 8
LOC792822 SPIN1 ENSDARG00000058949 1 Not determined 2
LOC793956 MKL2 ENSDARG00000088307 2 Not determined 2
LOC797518 GNA12 ENSDARG00000037619 None Not determined 7
lpar1 LPAR1 ENSDARG00000044213 None Not determined 2
mc4r MC4R ENSDARG00000015515 3 2 normal 14
mef2ca MEF2C ENSDARG00000029764 1 Not determined 8
mef2cb MEF2C ENSDARG00000009418 1 Not determined 8
mfap2 MFAP2 ENSDARG00000059367 None Not determined 3
MKL2 (2 of 3) MKL2 ENSDARG00000076704 None Not determined 2
MYO9A (2 of 2) MYO9A ENSDARG00000073843 3 Not determined 2
myo9al1 MYO9A ENSDARG00000076729 10 Not determined 2
myo9b MYO9B ENSDARG00000077410 5 Not determined 1
MYO9B (1 of 3) MYO9B ENSDARG00000078313 None Not determined 1
narfl NARFL ENSDARG00000062216 1 Not determined 1
ncana ACAN ENSDARG00000067820 1 Not determined 3
ncanb ACAN ENSDARG00000005783 1 Not determined 3
nfic NFIC ENSDARG00000043210 1 Not determined 1
nme2a NME2 ENSDARG00000043820 None Not determined 1
nme2b.2 NME2 ENSDARG00000076892 None Not determined 1
nog1 NOG ENSDARG00000058819 None Not determined 3
nog3 NOG ENSDARG00000079003 None Not determined 3
npr3 NPR3 ENSDARG00000035253 2 Not determined 7
NP_001099135.1 CABLES1 ENSDARG00000062044 None Not determined 6
NP_001103410.1 NPPC ENSDARG00000090921 None Not determined 3
nucb2a NUCB2 ENSDARG00000036299 1 Not determined 1
nucb2b NUCB2 ENSDARG00000036291 1 Not determined 1
PAPPA (1 of 2) PAPPA ENSDARG00000059544 3 Not determined 2
pccb PCCB ENSDARG00000038910 2 Not determined 2
pcsk5a PCSK5 ENSDARG00000067537 5 Normal 5
pcsk5b PCSK5 ENSDARG00000060518 None Not determined 5
pde11a PDE11A ENSDARG00000063732 1 Not determined 1
pde11al PDE11A ENSDARG00000006151 3 Not determined 1
pdia4 PDIA4 ENSDARG00000018491 1 Not determined 1
pex2 PEX2 ENSDARG00000062421 None Not determined 1
pitx1 PITX1 ENSDARG00000042785 None Not determined 4
pkn2 PKN2 ENSDARG00000006705 1 Not determined 3
pkn3 PKN2 ENSDARG00000079585 1 Not determined 3
polr2b POLR2B ENSDARG00000012592 1 Not determined 2
ppia PPIF ENSDARG00000009212 None Not determined 1
ppial PPIF ENSDARG00000042247 1 Not determined 1
ppif PPIF ENSDARG00000007409 None Not determined 1
prkcz PRKCZ ENSDARG00000043332 4 Not determined 2
rad51l1 RAD51L1 ENSDARG00000037046 1 Not determined 7
rpl5a RPL5 ENSDARG00000020197 None Not determined 3
rpl5b RPL5 ENSDARG00000015862 None Not determined 3
rtf1 RTF1 ENSDARG00000008947 None Not determined 1
rybpa RYBP ENSDARG00000037773 None Not determined 1
rybpb RYBP ENSDARG00000053459 None Not determined 1
sbno1 SBNO1 ENSDARG00000078969 1 Not determined 3
sdr16c5 SDR16C5 ENSDARG00000017794 1 Not determined 1
senp6a SENP6 ENSDARG00000012493 2 Not determined 1
sept2 SEPT2 ENSDARG00000027590 1 Not determined 1
serpine2 SERPINE2 ENSDARG00000029353 2 Not determined 1
sf3b4 SF3B4 ENSDARG00000018574 None Not determined 2
si:ch1073-409b12.4 SLC22A5 ENSDARG00000094112 None Not determined 5
si:ch211-119c20.2 CASKIN1 ENSDARG00000043818 1 Not determined 1
si:ch211-126j24.3 NPPC ENSDARG00000068126 None Not determined 3
si:ch211-148j1.1 TNS1 ENSDARG00000020845 6 Not determined 4
si:ch211-153i8.3 C2orf34 ENSDARG00000095224 None Not determined 1
si:ch211-167h3.1 DYM ENSDARG00000042555 5 Not determined 4
si:ch211-196f15.1 PAPPA ENSDARG00000059858 8 Not determined 2
si:ch211-216d10.1 DOCK3 ENSDARG00000095425 None Not determined 1
si:ch211-222h17.4 TULP4 ENSDARG00000045911 4 Not determined 1
si:ch211-234f14.1 CDK6 ENSDARG00000070228 None Not determined 8
si:ch211-23l10.2 KCNJ12 ENSDARG00000062618 None Not determined 1
si:ch211-265g22.4 ETV6 ENSDARG00000076512 None Not determined 2
si:ch211-45m15.2 L3MBTL3 ENSDARG00000025983 1 Not determined 2
si:ch73-142c19.2 PTPDC1 ENSDARG00000058873 None Not determined 1
si:ch73-160h15.3 DLEU7 ENSDARG00000094160 None Not determined 6
si:ch73-160p19.2 ZBTB38 ENSDARG00000077426 None Not determined 12
si:ch73-289a15.2 C3orf63 ENSDARG00000013346 4 Not determined 1
si:ch73-54n14.2 C2orf34 ENSDARG00000091900 None Not determined 1
si:dkey-108f8.2 L3MBTL3 ENSDARG00000074346 None Not determined 2
si:dkey-19f21.3 DNM3 ENSDARG00000032238 2 Not determined 6
si:dkey-208b23.5 SPAG17 ENSDARG00000058280 7 Not determined 3
si:dkey-221h15.4 SDR16C5 ENSDARG00000041873 1 Not determined 1
si:dkey-236e20.9 GPC5 ENSDARG00000024588 2 Not determined 9
si:dkey-249g23.1 MYO9B ENSDARG00000006892 3 Not determined 1
si:dkey-249g23.1 MYO9A ENSDARG00000006892 3 Not determined 2
si:dkey-250m6.8 EFEMP1 ENSDARG00000070996 None Not determined 8
si:dkey-39f8.1 PAPPA2 ENSDARG00000076020 2 Not determined 1
si:dkey-45m5.4 ADAMTS10 ENSDARG00000075188 3 Not determined 2
si:dkey-79f11.1 CASKIN1 ENSDARG00000092297 None Not determined 1
si:dkey-7o6.3 SMOX ENSDARG00000043403 1 Not determined 2
si:dkey-97m3.4 FRS2 ENSDARG00000045873 None Not determined 3
si:dkeyp-66d1.4 NFATC4 ENSDARG00000054162 1 Not determined 1
six6a SIX6 ENSDARG00000025187 3 Not determined 4
six6b SIX6 ENSDARG00000031316 None Not determined 4
six7 SIX6 ENSDARG00000070107 None Not determined 4
six9 SIX6 ENSDARG00000068407 None Not determined 4
slc22a4 SLC22A5 ENSDARG00000005335 2 Not determined 5
slco1c1 SLCO1C1 ENSDARG00000016749 3 Not determined 3
slco1f1 SLCO1C1 ENSDARG00000037605 1 Not determined 3
slco1f2 SLCO1C1 ENSDARG00000078354 None Not determined 3
slco1f3 SLCO1C1 ENSDARG00000076531 2 Not determined 3
slco1f4 SLCO1C1 ENSDARG00000045469 4 Not determined 3
slit3 SLIT3 ENSDARG00000034268 5 Not determined 1
smox SMOX ENSDARG00000036967 None Not determined 2
socs2 SOCS2 ENSDARG00000045557 1 Not determined 4
socs5a SOCS5 ENSDARG00000061573 None Not determined 2
socs5b SOCS5 ENSDARG00000062745 3 Not determined 2
socs9 SOCS5 ENSDARG00000074493 None Not determined 2
stard3nl STARD3NL ENSDARG00000045421 None Not determined 4
stat2 STAT2 ENSDARG00000031647 3 Not determined 3
suclg2 SUCLG2 ENSDARG00000044914 None Not determined 3
tbx16 TBX2 ENSDARG00000007329 None Not determined 5
tbx2a TBX2 ENSDARG00000018025 None Not determined 5
tbx2b TBX2 ENSDARG00000006120 1 Not determined 5
tbx6 TBX2 ENSDARG00000006939 None Not determined 5
tead1 TEAD1 ENSDARG00000059483 None Not determined 1
tead1 TEAD1 ENSDARG00000087397 None Not determined 1
tead1a TEAD1 ENSDARG00000028159 None Not determined 1
tgfb2 TGFB2 ENSDARG00000027087 None Not determined 2
TNS1 (2 of 2) TNS1 ENSDARG00000078842 1 Not determined 4
treh TREH ENSDARG00000077911 2 Not determined 2
trip11 TRIP11 ENSDARG00000078381 2 Not determined 3
TULP4 (2 of 2) TULP4 ENSDARG00000063056 3 Not determined 1
twistnb TWISTNB ENSDARG00000024416 1 Not determined 1
vgll2a VGLL2 ENSDARG00000041706 1 Not determined 1
wu:fl04e06 MKL2 ENSDARG00000076867 9 Not determined 2
zbtb24 ZBTB24 ENSDARG00000058863 None Not determined 2
ZCCHC6 ZCCHC6 ENSDARG00000074645 1 Not determined 1
zfat ZFAT ENSDARG00000077987 1 Not determined 2
zgc:101598 FUBP3 ENSDARG00000087058 None Not determined 3
zgc:103754 SSSCA1 ENSDARG00000069109 None Not determined 1
zgc:110191 CCDC3 ENSDARG00000030632 1 Not determined 1
zgc:110848 LYPLAL1 ENSDARG00000088764 None Not determined 6
zgc:113025 SERPINH1 ENSDARG00000036445 3 Normal 2
zgc:136564 C9orf64 ENSDARG00000041372 2 Not determined 1
zgc:153916 PKN2 ENSDARG00000036707 2 Not determined 3
zgc:153948 HMGA1 ENSDARG00000070951 2 Not determined 9
zgc:153974 JMJD4 ENSDARG00000058995 None Not determined 1
zgc:154088 SLC38A9 ENSDARG00000032769 2 Not determined 1
zgc:154093 CDC42EP3 ENSDARG00000055897 None Not determined 2
zgc:158271 PTPDC1 ENSDARG00000061656 2 Not determined 1
zgc:162582 SCMH1 ENSDARG00000069932 3 Not determined 2
zgc:162595 C2CD4A ENSDARG00000061416 1 Not determined 4
zgc:171630 SERPINH1 ENSDARG00000075954 None Not determined 2
zgc:171837 ZNF341 ENSDARG00000079749 1 Not determined 1
zgc:175162 TSEN15 ENSDARG00000069280 1 Not determined 1
zgc:56429 FOLH1 ENSDARG00000021383 1 Not determined 2
zgc:66484 SMOX ENSDARG00000030478 1 Not determined 2
zgc:76925 SDR16C5 ENSDARG00000016233 1 Not determined 1
zgc:77752 PTPDC1 ENSDARG00000042387 1 Not determined 1
zgc:85611 ACBD4 ENSDARG00000027070 None Not determined 3
zgc:91942 HDAC11 ENSDARG00000037346 None Not determined 1
zgc:92806 CDC42EP3 ENSDARG00000052783 None Not determined 2
ZNF462 ZNF462 ENSDARG00000063381 7 Not determined 3
znf652 ZNF652 ENSDARG00000062302 1 Not determined 5
ZNFX1 ZNFX1 ENSDARG00000074028 3 Not determined 1

The following reported genes could not be linked automatically to a zebrafish gene:

  • ATAD5/RNF135
  • ATP5SL
  • C3orf47
  • C6orf173
  • CCDC108/IHH
  • CCDC53/GNPTAB
  • CCDC91
  • CSH1/GH1
  • CTU2/GALNS
  • FGFR4/NSD1
  • GH region
  • GSDMC
  • Histone cluster
  • HLA locus
  • KCNE2
  • KCNJ16/KCNJ2
  • LCORL
  • LCORL
  • LIN28
  • LRRC37B
  • LTBP2
  • MICA
  • MICA
  • NCKAP5
  • OR2J3
  • OR4A5
  • PDS5B/BRCA2
  • PIP4K2B
  • PML
  • PML
  • PPARD/FANCE
  • PRKG2/BMP3
  • PTCH1/FANCC
  • PTPRJ/SLC39A13
  • RHOD
  • SLBP/FGFR3
  • SUPT3H/RUNX2
  • TET2
  • TMEM176A
  • WWC2
* quick link - http://q.sanger.ac.uk/g73p80y6