Variant report

Variant	rs1177701
Chromosome Location	chr10:61624697-61624698
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:61606026..61608992-chr10:61624658..61626337,2	K562	blood:
2	chr10:61622142..61625052-chr10:61830945..61832691,2	K562	blood:
3	chr10:61624578..61625508-chr10:61792243..61793150,3	MCF-7	breast:
4	chr10:61624637..61625250-chr10:62193908..62194412,2	K562	blood:
5	chr10:61613806..61616077-chr10:61621477..61625736,3	MCF-7	breast:
6	chr10:61623049..61625625-chr10:61665544..61668318,6	MCF-7	breast:
7	chr10:61624586..61625564-chr10:61792231..61793204,4	K562	blood:
8	chr10:61623680..61630815-chr10:61664299..61668134,10	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000108091	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10994051	0.81[EUR][1000 genomes]
rs1171786	0.83[GIH][hapmap];0.87[MEX][hapmap];0.81[TSI][hapmap]
rs1171788	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12243564	0.81[CEU][hapmap]
rs1621496	1.00[CEU][hapmap];0.81[JPT][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1626088	0.87[ASW][hapmap];0.82[CEU][hapmap];0.96[GIH][hapmap];0.89[LWK][hapmap];0.89[TSI][hapmap];0.84[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs1664255	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1664256	0.91[GIH][hapmap];0.81[JPT][hapmap];0.83[MEX][hapmap];0.83[AMR][1000 genomes]
rs1684896	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1684901	0.85[GIH][hapmap];0.83[MEX][hapmap]
rs2458661	0.81[CEU][hapmap];0.87[MEX][hapmap];0.81[EUR][1000 genomes]
rs3106569	0.88[EUR][1000 genomes]
rs3851247	0.83[MEX][hapmap];0.82[EUR][1000 genomes]
rs3851248	0.82[EUR][1000 genomes]
rs3862860	0.82[EUR][1000 genomes]
rs3999569	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs3999570	0.81[CEU][hapmap];0.87[MEX][hapmap];0.80[TSI][hapmap];0.82[EUR][1000 genomes]
rs4948372	0.81[CEU][hapmap];0.87[MEX][hapmap];0.80[TSI][hapmap];0.81[EUR][1000 genomes]
rs4948373	0.81[EUR][1000 genomes]
rs4948374	0.87[MEX][hapmap]
rs4948375	0.83[CEU][hapmap];0.81[EUR][1000 genomes]
rs61848702	0.82[EUR][1000 genomes]
rs6479661	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs6479662	0.81[EUR][1000 genomes]
rs7068104	0.81[EUR][1000 genomes]
rs7068247	0.82[EUR][1000 genomes]
rs7074685	0.80[EUR][1000 genomes]
rs7079228	0.81[CEU][hapmap];0.87[MEX][hapmap];0.80[TSI][hapmap];0.82[EUR][1000 genomes]
rs9663498	0.81[CEU][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1177701	SLC16A9	cis	cerebellum	SCAN
rs1177701	EGR2	cis	parietal	SCAN
rs1177701	CCDC6	cis	Esophagus Mucosa	GTEx

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:61571400-61628000	Weak transcription	Spleen	Spleen
2	chr10:61583200-61640600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr10:61593200-61629400	Weak transcription	Lung	lung
4	chr10:61608000-61637200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr10:61610400-61628000	Weak transcription	Fetal Muscle Trunk	muscle
6	chr10:61612200-61624800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr10:61614200-61629400	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr10:61615200-61628000	Weak transcription	Esophagus	oesophagus
9	chr10:61616600-61626600	Weak transcription	Aorta	Aorta
10	chr10:61618000-61632600	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr10:61618400-61628600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr10:61618600-61624800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr10:61618600-61633200	Weak transcription	HSMM	muscle
14	chr10:61618800-61625000	Weak transcription	NHDF-Ad	bronchial
15	chr10:61618800-61625200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr10:61620400-61625000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr10:61621200-61628400	Weak transcription	Fetal Intestine Large	intestine
18	chr10:61621200-61630200	Weak transcription	Fetal Stomach	stomach
19	chr10:61621800-61628400	Weak transcription	Fetal Muscle Leg	muscle
20	chr10:61622200-61624800	Weak transcription	Fetal Intestine Small	intestine
21	chr10:61623600-61624800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr10:61623600-61625000	Enhancers	Stomach Mucosa	stomach
23	chr10:61623600-61625600	Enhancers	Duodenum Mucosa	Duodenum
24	chr10:61623600-61626200	Enhancers	Fetal Heart	heart
25	chr10:61623800-61625000	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr10:61623800-61625000	Enhancers	Pancreatic Islets	Pancreatic Islet
27	chr10:61623800-61625000	Enhancers	Rectal Mucosa Donor 31	rectum
28	chr10:61623800-61625200	Enhancers	iPS-20b Cell Line	embryonic stem cell
29	chr10:61623800-61625800	Enhancers	Liver	Liver
30	chr10:61623800-61626800	Enhancers	Colon Smooth Muscle	Colon
31	chr10:61623800-61628000	Enhancers	Primary T helper cells PMA-I stimulated	--
32	chr10:61624000-61624800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
33	chr10:61624000-61625000	Enhancers	HUES6 Cell Line	embryonic stem cell
34	chr10:61624000-61625000	Enhancers	Skeletal Muscle Male	skeletal muscle
35	chr10:61624000-61625000	Enhancers	Hela-S3	cervix
36	chr10:61624000-61625000	Enhancers	K562	blood
37	chr10:61624000-61625000	Flanking Active TSS	NHEK	skin
38	chr10:61624000-61625200	Enhancers	iPS-15b Cell Line	embryonic stem cell
39	chr10:61624000-61625200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr10:61624000-61625200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
41	chr10:61624000-61625200	Enhancers	Brain Anterior Caudate	brain
42	chr10:61624000-61625200	Enhancers	Right Atrium	heart
43	chr10:61624000-61625400	Enhancers	Cortex derived primary cultured neurospheres	brain
44	chr10:61624000-61625600	Enhancers	Psoas Muscle	Psoas
45	chr10:61624000-61625800	Enhancers	Left Ventricle	heart
46	chr10:61624000-61626000	Enhancers	Small Intestine	intestine
47	chr10:61624000-61626200	Enhancers	HMEC	breast
48	chr10:61624000-61626600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
49	chr10:61624000-61626800	Enhancers	Sigmoid Colon	Sigmoid Colon
50	chr10:61624200-61624800	Enhancers	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links