Variant report

Variant	rs883372
Chromosome Location	chr6:37477605-37477606
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:37463837..37466464-chr6:37476098..37478071,3	K562	blood:
2	chr6:37477157..37479620-chr6:37505703..37507829,2	K562	blood:

Extended variants
information (count: 12 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs1224128	0.87[CEU][hapmap];0.80[AMR][1000 genomes]
rs2254710	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2776873	0.86[ASN][1000 genomes]
rs2776908	0.80[EUR][1000 genomes]
rs2776910	0.83[CEU][hapmap];0.83[AMR][1000 genomes]
rs2776911	0.84[CEU][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2776918	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2797793	0.85[ASN][1000 genomes]
rs2797803	0.80[CHB][hapmap]
rs931649	0.83[CEU][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752124	chr6:37416219-37680622	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	nsv1016310	chr6:37473075-37528469	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs883372	RP1-153P14.8	cis	Whole Blood	GTEx
rs883372	RP1-153P14.5	cis	Whole Blood	GTEx

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37468000-37483600	Enhancers	Fetal Thymus	thymus
2	chr6:37471200-37477800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr6:37471200-37483600	Weak transcription	Spleen	Spleen
4	chr6:37473800-37482200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr6:37475800-37479400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr6:37476200-37478600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:37476200-37483600	Enhancers	Thymus	Thymus
8	chr6:37476400-37481200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr6:37476600-37477800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
10	chr6:37476600-37480400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr6:37476800-37478600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr6:37476800-37478800	Weak transcription	Primary T cells from cord blood	blood
13	chr6:37476800-37482200	Weak transcription	GM12878-XiMat	blood
14	chr6:37477000-37478800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr6:37477000-37478800	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr6:37477000-37479000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr6:37477000-37480400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr6:37477200-37478800	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr6:37477200-37479600	Weak transcription	Primary T helper cells fromperipheralblood	blood
20	chr6:37477400-37480200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr6:37477400-37480200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr6:37477600-37478800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links