Variant report

Variant	rs2025680
Chromosome Location	chr10:4004343-4004344
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:3826047..3829382-chr10:4003053..4005347,3	MCF-7	breast:
2	chr10:3998313..4000642-chr10:4003967..4005833,2	K562	blood:
3	chr10:3998272..4000817-chr10:4003234..4005418,4	MCF-7	breast:
4	chr10:3826407..3828604-chr10:4003074..4005600,3	K562	blood:

Variant related genes	Relation type
ENSG00000067082	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs11252210	0.94[ASN][1000 genomes]
rs11252215	0.94[ASN][1000 genomes]
rs11252216	0.94[ASN][1000 genomes]
rs12221033	0.94[ASN][1000 genomes]
rs2025681	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043680	chr10:3551191-4038002	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv1051297	chr10:3908706-4277678	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
3	nsv894784	chr10:3985194-4051081	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Genic enhancers	Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv5609	chr10:4002849-4040114	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA miRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4001200-4006000	Enhancers	Primary T cells fromperipheralblood	blood
2	chr10:4001200-4006200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
3	chr10:4001800-4004400	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr10:4001800-4004400	Enhancers	Fetal Thymus	thymus
5	chr10:4002000-4004400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr10:4002000-4004400	Enhancers	Primary T killer memory cells from peripheral blood	blood
7	chr10:4002200-4004600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
8	chr10:4002200-4005600	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr10:4002200-4022000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr10:4002400-4005200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr10:4002400-4005400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr10:4002400-4005400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr10:4002400-4005400	Weak transcription	NHEK	skin
14	chr10:4002600-4004600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr10:4003800-4005400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr10:4004000-4005200	Weak transcription	Small Intestine	intestine
17	chr10:4004000-4011000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr10:4004200-4006400	Enhancers	Dnd41	blood
19	chr10:4004200-4007600	Enhancers	Rectal Mucosa Donor 29	rectum
20	chr10:4004200-4011000	Weak transcription	Primary T cells from cord blood	blood
21	chr10:4004200-4011000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links