Variant report

Variant	rs61778404
Chromosome Location	chr1:10432879-10432880
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:10429321..10433968-chr1:10435365..10440945,9	K562	blood:
2	chr1:10428901..10433692-chr1:10435173..10439576,7	K562	blood:

Extended variants
information (count: 144 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:139)

rs_ID	r²[population]
rs1002076	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10492971	0.81[EUR][1000 genomes]
rs10492972	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10492973	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1049887	0.86[EUR][1000 genomes]
rs1065828	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10864453	0.83[ASN][1000 genomes]
rs11121537	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11121539	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11121544	0.80[EUR][1000 genomes]
rs11121545	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11121551	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11121552	0.86[EUR][1000 genomes]
rs11121555	0.89[ASN][1000 genomes]
rs11121557	0.93[ASN][1000 genomes]
rs11121560	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11121561	0.88[ASN][1000 genomes]
rs11121563	0.87[ASN][1000 genomes]
rs11121566	0.86[ASN][1000 genomes]
rs1138791	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11576384	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11576459	0.81[EUR][1000 genomes]
rs11576654	0.86[EUR][1000 genomes]
rs11576866	0.82[EUR][1000 genomes]
rs11578694	0.84[EUR][1000 genomes]
rs11578788	0.82[EUR][1000 genomes]
rs11579365	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11580789	0.85[EUR][1000 genomes]
rs11582123	0.82[EUR][1000 genomes]
rs11584023	0.82[EUR][1000 genomes]
rs11585760	0.82[EUR][1000 genomes]
rs11585794	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11586842	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11587309	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11587495	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11587854	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12118323	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12119477	0.82[EUR][1000 genomes]
rs12120042	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12120191	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12122029	0.81[EUR][1000 genomes]
rs12125535	0.81[EUR][1000 genomes]
rs12127604	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12128374	0.90[ASN][1000 genomes]
rs12130563	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12131441	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12132134	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12132635	0.83[EUR][1000 genomes]
rs12137880	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12139981	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12141201	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12141416	0.88[EUR][1000 genomes]
rs12403465	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12409754	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12409933	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs12722830	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12725210	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12734551	0.81[EUR][1000 genomes]
rs12738317	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12746471	0.86[ASN][1000 genomes]
rs12753426	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1467653	0.87[ASN][1000 genomes]
rs1536262	0.93[ASN][1000 genomes]
rs1555849	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1556916	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1556917	0.85[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17034643	0.82[EUR][1000 genomes]
rs17034821	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17401924	0.81[EUR][1000 genomes]
rs17401966	0.81[EUR][1000 genomes]
rs17402762	0.87[ASN][1000 genomes]
rs17410217	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17410793	0.82[EUR][1000 genomes]
rs17411502	0.85[EUR][1000 genomes]
rs1889309	0.80[EUR][1000 genomes]
rs2039778	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2148152	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2182326	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2185252	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2229687	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2236678	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2276100	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34045426	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34075302	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34636442	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35388505	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35716098	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35759975	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35811280	0.91[ASN][1000 genomes]
rs35850116	0.82[EUR][1000 genomes]
rs3737155	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3748577	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3748578	0.82[EUR][1000 genomes]
rs3748579	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3748581	0.93[ASN][1000 genomes]
rs3762286	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3762287	0.86[ASN][1000 genomes]
rs3762288	0.87[ASN][1000 genomes]
rs4240911	0.85[EUR][1000 genomes]
rs4333852	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4475756	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4623	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4845931	0.82[EUR][1000 genomes]
rs4845934	0.82[EUR][1000 genomes]
rs4846205	0.85[EUR][1000 genomes]
rs4846209	0.80[EUR][1000 genomes]
rs4846212	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4846213	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4846216	0.93[ASN][1000 genomes]
rs4846218	0.87[ASN][1000 genomes]
rs4846219	0.87[ASN][1000 genomes]
rs4846221	0.86[ASN][1000 genomes]
rs58014725	0.86[ASN][1000 genomes]
rs58053556	0.85[EUR][1000 genomes]
rs58697740	0.82[EUR][1000 genomes]
rs60743860	0.86[EUR][1000 genomes]
rs61326491	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs61778376	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61778399	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61778401	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61778402	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61778403	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6541089	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6541090	0.83[ASN][1000 genomes]
rs6541094	0.85[ASN][1000 genomes]
rs6674843	0.86[EUR][1000 genomes]
rs6674949	0.93[ASN][1000 genomes]
rs6682868	0.93[ASN][1000 genomes]
rs746881	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7524693	0.81[EUR][1000 genomes]
rs7530167	0.86[EUR][1000 genomes]
rs7546364	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7546368	0.87[ASN][1000 genomes]
rs7553228	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7553935	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs912961	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs912963	0.82[EUR][1000 genomes]
rs9332414	0.80[EUR][1000 genomes]
rs9651117	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757722	chr1:10238070-10582554	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	esv2758920	chr1:10238070-10582554	Strong transcription Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv817370	chr1:10305470-10697150	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv1008021	chr1:10363794-10802633	Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
5	esv2764192	chr1:10383734-10594186	Strong transcription Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs61778404	KIF1B	cis	Thyroid	GTEx

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:10380400-10436600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr1:10381000-10436400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr1:10385200-10436400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr1:10386000-10434800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr1:10393800-10444600	Strong transcription	Cortex derived primary cultured neurospheres	brain
6	chr1:10394200-10441800	Strong transcription	Liver	Liver
7	chr1:10397800-10434800	Weak transcription	Primary B cells from peripheral blood	blood
8	chr1:10398000-10438000	Weak transcription	GM12878-XiMat	blood
9	chr1:10400200-10438200	Weak transcription	Stomach Mucosa	stomach
10	chr1:10400600-10434600	Weak transcription	K562	blood
11	chr1:10400600-10446400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr1:10400600-10447400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr1:10402600-10437200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr1:10404400-10433800	Weak transcription	Dnd41	blood
15	chr1:10409800-10447400	Weak transcription	Small Intestine	intestine
16	chr1:10418400-10445600	Strong transcription	Fetal Brain Female	brain
17	chr1:10419200-10437800	Weak transcription	Right Atrium	heart
18	chr1:10419200-10442800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr1:10419800-10441200	Strong transcription	Fetal Stomach	stomach
20	chr1:10420000-10440000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr1:10420200-10445000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr1:10420200-10446000	Strong transcription	Brain Germinal Matrix	brain
23	chr1:10420800-10437400	Strong transcription	Fetal Muscle Trunk	muscle
24	chr1:10421000-10440000	Strong transcription	Fetal Intestine Small	intestine
25	chr1:10421000-10440200	Strong transcription	Stomach Smooth Muscle	stomach
26	chr1:10422400-10447200	Weak transcription	Fetal Heart	heart
27	chr1:10422600-10440600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr1:10424800-10433000	Strong transcription	Brain Hippocampus Middle	brain
29	chr1:10425000-10433000	Strong transcription	Brain Cingulate Gyrus	brain
30	chr1:10425000-10436800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr1:10425000-10438000	Strong transcription	Adipose Nuclei	Adipose
32	chr1:10425000-10438200	Strong transcription	Fetal Muscle Leg	muscle
33	chr1:10425200-10435600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr1:10425200-10437000	Strong transcription	Duodenum Mucosa	Duodenum
35	chr1:10425200-10437200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
36	chr1:10425200-10438000	Strong transcription	Brain Anterior Caudate	brain
37	chr1:10425200-10441600	Strong transcription	Skeletal Muscle Female	skeletal muscle
38	chr1:10425200-10441800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr1:10425800-10433800	Weak transcription	NHEK	skin
40	chr1:10425800-10447800	Weak transcription	Psoas Muscle	Psoas
41	chr1:10426000-10434000	Weak transcription	Primary hematopoietic stem cells	blood
42	chr1:10426000-10434000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr1:10426000-10434400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr1:10426000-10437000	Weak transcription	Hela-S3	cervix
45	chr1:10426000-10438200	Weak transcription	Fetal Thymus	thymus
46	chr1:10426600-10438200	Weak transcription	NHLF	lung
47	chr1:10426800-10434200	Weak transcription	Gastric	stomach
48	chr1:10426800-10434800	Weak transcription	Aorta	Aorta
49	chr1:10427800-10437400	Strong transcription	Monocytes-CD14+_RO01746	blood
50	chr1:10427800-10439800	Strong transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links