Variant report

Variant	rs974961
Chromosome Location	chr6:30315011-30315012
allele	A/T
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	chr6:30178310..30184484-chr6:30311860..30320436,13	MCF-7	breast:
2	chr20:55838873..55840993-chr6:30313290..30315542,2	MCF-7	breast:
3	chr6:30188017..30189614-chr6:30314561..30316760,2	MCF-7	breast:
4	chr6:30170658..30173210-chr6:30313081..30315587,2	K562	blood:
5	chr6:30314566..30317004-chr6:30328728..30331075,2	MCF-7	breast:
6	chr6:30314802..30317926-chr6:30329126..30332840,3	MCF-7	breast:
7	chr6:30293058..30297784-chr6:30308514..30315279,24	MCF-7	breast:
8	chr6:30314848..30317464-chr6:30330567..30333500,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000248167	Chromatin interaction
ENSG00000204599	Chromatin interaction
ENSG00000101144	Chromatin interaction
ENSG00000231074	Chromatin interaction
ENSG00000234127	Chromatin interaction
ENSG00000236405	Chromatin interaction
ENSG00000270604	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11967	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1264585	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2285800	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs261944	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs261946	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2844749	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3130396	0.81[ASN][1000 genomes]
rs4713305	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261639	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261647	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025667	chr6:30292845-30638066	Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	825 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30313400-30321400	Weak transcription	Spleen	Spleen
2	chr6:30313800-30316400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr6:30313800-30325600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:30314000-30315400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr6:30314000-30316400	Weak transcription	Adipose Nuclei	Adipose
6	chr6:30314000-30316400	Strong transcription	Thymus	Thymus
7	chr6:30314000-30316800	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr6:30314000-30317200	Weak transcription	Brain Substantia Nigra	brain
9	chr6:30314000-30318000	Weak transcription	Fetal Kidney	kidney
10	chr6:30314000-30318400	Weak transcription	HSMM	muscle
11	chr6:30314000-30319400	Weak transcription	Brain Hippocampus Middle	brain
12	chr6:30314000-30319400	Weak transcription	Colonic Mucosa	Colon
13	chr6:30314000-30323200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr6:30314000-30323200	Weak transcription	Aorta	Aorta
15	chr6:30314000-30324200	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr6:30314000-30325600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr6:30314200-30315200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr6:30314200-30315200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr6:30314200-30315200	Strong transcription	Primary B cells from peripheral blood	blood
20	chr6:30314200-30315200	Strong transcription	Cortex derived primary cultured neurospheres	brain
21	chr6:30314200-30315200	Strong transcription	Brain Cingulate Gyrus	brain
22	chr6:30314200-30315200	Strong transcription	Placenta	Placenta
23	chr6:30314200-30315400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:30314200-30315400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
25	chr6:30314200-30315400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr6:30314200-30315400	Strong transcription	Stomach Smooth Muscle	stomach
27	chr6:30314200-30315400	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr6:30314200-30315600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:30314200-30315600	Strong transcription	HUES48 Cell Line	embryonic stem cell
30	chr6:30314200-30315600	Strong transcription	Primary B cells from cord blood	blood
31	chr6:30314200-30315600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr6:30314200-30315600	Strong transcription	Duodenum Mucosa	Duodenum
33	chr6:30314200-30315600	Strong transcription	Fetal Muscle Trunk	muscle
34	chr6:30314200-30315600	Strong transcription	Rectal Mucosa Donor 29	rectum
35	chr6:30314200-30315600	Strong transcription	Skeletal Muscle Female	skeletal muscle
36	chr6:30314200-30315800	Weak transcription	NH-A	brain
37	chr6:30314200-30316000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr6:30314200-30316000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr6:30314200-30316000	Strong transcription	Brain Angular Gyrus	brain
40	chr6:30314200-30316200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr6:30314200-30316200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr6:30314200-30316200	Strong transcription	Fetal Stomach	stomach
43	chr6:30314200-30316200	Strong transcription	Sigmoid Colon	Sigmoid Colon
44	chr6:30314200-30316400	Strong transcription	Primary T cells from cord blood	blood
45	chr6:30314200-30316600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr6:30314200-30316800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
47	chr6:30314200-30316800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr6:30314200-30316800	Weak transcription	Small Intestine	intestine
49	chr6:30314200-30316800	Weak transcription	Hela-S3	cervix
50	chr6:30314200-30316800	Weak transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links