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GVM
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Genome Assembly
Animals-----------
Homo sapiens (human GRCh37)
Felis catus (cat Felis_catus_9.0)
Bos taurus (cattle UMD_3.1)
Gallus gallus (chicken Gallus_gallus-5.0)
Canis familaries (dog CanFam3.1)
Anas platyrhynchos (duck BGI_duck_1.0)
Ailuropoda melanoleuca (giant panda AilMel1)
Ailuropoda melanoleuca (giant panda ASM200744v2)
Equus caballus (horse EquCab2.0)
Capra hircus (goat CHIR_2.0)
Orcinus orca (killer whale Oorcal.1)
Sus scrofa (pig Sscrofa10.2)
Ailurus fulgens (lesser panda ASM200746v1)
Manis javanica (malayan pangolin YNU_ManJav_2.0)
Ovis aries (sheep Oar_v4.0)
Anser cygnoides (swan goose PRJNA183603_v1.0)
Equus ferus (tarpan EquCab2.0)
Bos mutus (wild yak BosGru_v2.0)
Plants-----------
Catharanthus roseus (catharanthus roseus ASM94934v1)
Cannabis sativa (cannabis GCF_900626175.1)
Daucus carota (carrot Dcarota_388_v2.0)
Setaria italica (Foxtail millet Setaria_italica_v2.0)
Manihot esculenta (cassava Manihot esculenta v6.1)
Phaseolus vulgaris (common bean Pvulgaris_442_v2.0)
Gossypium hirsutum (cotton Ghir.BGI)
Vigna unguiculata (cowpea ASM411807v2)
Cucumis sativus (cucumber RefGen_v3)
Phoenix dactylifera (date palm DPV01)
Brassica rapa (field mustard CAAS_Brap_v3.01)
Ganoderma lucidum (ganoderma GanLuc1.0)
Vitis vinifera (grape IGGP_12x)
Prunus mume (Japanese apricot P.mume_V1.0)
Jatropha curcas (jatropha JatCur_1.0)
Zea mays (maize RefGen_v4)
P.heterocycla (moso bamboo P.heterocycle 1.0)
Capsicum annuum (pepper Zunla 1 Ref_v1.0)
Fagopyrum tataricum (Tartary Buckwheat Pinku1)
Populus trichocarpa (poplar JGI v3.0)
Brassica napus (rapeseed Bra_napus_v2.0)
Oryza sativa (rice IRGSP1.0)
Hevea brasiliensis (rubber reyan7-33-97)
Secale cereale (rye Lo7)
Salvia miltiorrhiza (salvia miltiorrhiza Salvia_genome)
Sorghum bicolor (sorghum Sbiv3.1)
Sorghum bicolor V2 (sorghum Sbiv3.1)
Glycine max (soybean Wm82.a2.v1)
Ipomoea batatas (Sweet potato pasi3)
Solanum lycopersicum (tomato SL2.50)
Triticum aestivum (wheat TGACv1)
Triticum aestivum (wheat IWGSC1.0)
Triticum urartu (diploid wheat IGDBv1)
Virus-----------
SARS-CoV-2 (2019-nCoV MN908947.3)
SRAS-CoV (SARS NC_004718.3)
MERS-CoV (MERS NC_019843.3)
Position and Type
Variant ID
dbSNP rsid
Reference Location
Variation Type
All
SNP
InDel
Consequence Type
HIGH
MODERATE
LOW
MODIFIER
Annotation Gene Information
Gene ID
Upstream
Downstream
Gene Symbol
Gramene ID
UniprotKB
Biotype
mRNA
rRNA
miRNA
Ontology Term
Ontology Key Words
Minor Allele Frequency
MAF
>=
<=
=
(0-0.5)
ClinVar Traits
Effect
affects
benign
likely benign
likely pathogenic
pathogenic
uncertain significance
association
drug response
not reported for simple variant
protective
risk factor
other
Initial
A(617)
B(256)
C(790)
D(383)
E(256)
F(264)
G(261)
H(1215)
I(179)
J(50)
K(49)
L(264)
M(659)
N(201)
O(147)
P(540)
Q(2)
R(186)
S(485)
T(189)
U(37)
V(65)
W(60)
X(25)
Y(4)
Z(9)
Digit(29)
Other(3)
OMIM Traits
Initial
A(550)
B(245)
C(777)
D(300)
E(255)
F(200)
G(278)
H(1302)
I(136)
J(40)
K(36)
L(256)
M(708)
N(211)
O(142)
P(472)
R(189)
S(442)
T(206)
<
U(29)
V(66)
W(63)
X(14)
Y(2)
Z(2)
Digit(36)
GWAS-Catalog Traits
Ontology
immune system disease(EFO_0000540)
body weights and measures(EFO_0004324)
cancer(EFO_0000311)
cardiovascular disease(EFO_0000319)
cardiovascular measurement(EFO_0004298)
digestive system disease(EFO_0000405)
hematological measurement(EFO_0004503)
inflammatory biomarker measurement(EFO_0004872)
lipid or lipoprotein measurement(EFO_0005105)
liver enzyme measurement(EFO_0004582)
metabolic disease(EFO_0000589)
nervous system disease(EFO_0000618)
response to drug(GO_0042493)
other
Genotype to Phenotype
growth
drought tolerance
metabolite
agronomic traits
resistance
flowering time
forage quality
yield
Pfam
Pfam Accession
Pfam Name
Protein Id
Setting Properties
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Search Results: 1365924
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VarID
Position
Alleles
MAF
Consequence Type|Effect
Gene
dbSNP
tae2922
TGACv1_scaffold_177392_2DS:50034
A/AG
AG:0.0847
downstream_gene_variant|MODIFIER;
TRIAE_CS42_2DS_TGACv1_177392_AA0575430
5387127_2d
3_prime_UTR_variant|MODIFIER;
TRIAE_CS42_2DS_TGACv1_177392_AA0575420
tae14311
TGACv1_scaffold_193856_3AL:167289
G/GT
G:0.3115
upstream_gene_variant|MODIFIER;
TRIAE_CS42_3AL_TGACv1_193856_AA0621010
4345395_3a
3_prime_UTR_variant|MODIFIER;
TRIAE_CS42_3AL_TGACv1_193856_AA0621020
tae23631
TGACv1_scaffold_196244_3AL:15259
C/CTAA
CTAA:0.1949
upstream_gene_variant|MODIFIER;
TRIAE_CS42_3AL_TGACv1_196244_AA0658710
4423837_3a
3_prime_UTR_variant|MODIFIER;
TRIAE_CS42_3AL_TGACv1_196244_AA0658720
tae25242
TGACv1_scaffold_197129_3AL:10639
C/CTGATAATATATATAACTAATG
CTGATAATATATATAACTAATG:0.1129
3_prime_UTR_variant|MODIFIER;
TRIAE_CS42_3AL_TGACv1_197129_AA0664970
4446356_3a
tae34580
TGACv1_scaffold_000002_1AL:458635-458636
GT/G
G:0.0887
upstream_gene_variant|MODIFIER;
TRIAE_CS42_1AL_TGACv1_000002_AA0000040
1065975_1a
3_prime_UTR_variant|MODIFIER;
TRIAE_CS42_1AL_TGACv1_000002_AA0000050
tae37768
TGACv1_scaffold_220772_3B:273870
T/TA
TA:0.0403
intron_variant|MODIFIER;
TRIAE_CS42_3B_TGACv1_220772_AA0718800
10494285_3
tae38752
TGACv1_scaffold_220873_3B:136787
T/TAA
TAA:0.1250
upstream_gene_variant|MODIFIER;
TRIAE_CS42_3B_TGACv1_220873_AA0722020
10525917_3
5_prime_UTR_variant|MODIFIER;
TRIAE_CS42_3B_TGACv1_220873_AA0722030
tae51652
TGACv1_scaffold_000410_1AL:9143
G/GT
GT:0.0500
downstream_gene_variant|MODIFIER;
TRIAE_CS42_1AL_TGACv1_000410_AA0011450
3915371_1a
synonymous_variant|LOW;
TRIAE_CS42_1AL_TGACv1_000410_AA0011460
tae51763
TGACv1_scaffold_223102_3B:9740
A/AT
AT:0.5000
10608878_3
tae56411
TGACv1_scaffold_224058_3B:49404
G/GGGATGA
GGGATGA:0.2333
10586871_3
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