Variant report

Variant	rs3025622
Chromosome Location	chr6:29609289-29609290
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:4)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:29608179..29610477-chr6:29617988..29619609,2	K562	blood:
2	chr6:29609140..29610048-chr6:29673773..29674677,2	MCF-7	breast:
3	chr6:29598626..29603210-chr6:29607516..29611410,5	K562	blood:
4	chr6:29608179..29609839-chr6:29617502..29619488,2	K562	blood:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MOG-1	chr6:29606808-29609324	NONHSAT108534
2	lnc-MOG-1	chr6:29606808-29609323	ucscGeneNc_uc003nmn_2

No data

Variant related genes	Relation type
ENSG00000204681	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs16895213	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16895214	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17178077	1.00[ASN][1000 genomes]
rs6912437	1.00[ASN][1000 genomes]
rs6920509	1.00[ASN][1000 genomes]
rs7767894	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv969292	chr6:29604881-29612154	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29607400-29609400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr6:29607600-29609400	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr6:29608200-29609400	Enhancers	Primary T helper cells PMA-I stimulated	--
4	chr6:29608400-29609400	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr6:29608400-29609400	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr6:29608400-29609600	Enhancers	Primary T cells from cord blood	blood
7	chr6:29608400-29610600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:29608400-29610800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr6:29608400-29611000	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr6:29608400-29611600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
11	chr6:29608400-29616400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:29608600-29609600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr6:29608600-29610000	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr6:29608600-29610200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
15	chr6:29608600-29610400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
16	chr6:29608800-29609600	Enhancers	Rectal Mucosa Donor 31	rectum
17	chr6:29608800-29609600	Enhancers	K562	blood
18	chr6:29608800-29610400	Enhancers	Primary T cells fromperipheralblood	blood
19	chr6:29608800-29611200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
20	chr6:29609200-29609400	Enhancers	H9 Cell Line	embryonic stem cell
21	chr6:29609200-29609400	Enhancers	Monocytes-CD14+_RO01746	blood
22	chr6:29609200-29609800	Enhancers	HUES48 Cell Line	embryonic stem cell
23	chr6:29609200-29609800	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr6:29609200-29609800	Enhancers	HUES64 Cell Line	embryonic stem cell
25	chr6:29609200-29609800	Enhancers	iPS-20b Cell Line	embryonic stem cell
26	chr6:29609200-29609800	Enhancers	Colonic Mucosa	Colon
27	chr6:29609200-29610000	Enhancers	ES-I3 Cell Line	embryonic stem cell
28	chr6:29609200-29610000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr6:29609200-29610000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr6:29609200-29610000	Enhancers	GM12878-XiMat	blood
31	chr6:29609200-29610000	Enhancers	Hela-S3	cervix
32	chr6:29609200-29610000	Enhancers	HMEC	breast
33	chr6:29609200-29610000	Enhancers	NHEK	skin
34	chr6:29609200-29610200	Enhancers	Primary B cells from peripheral blood	blood
35	chr6:29609200-29610200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr6:29609200-29610200	Enhancers	Stomach Mucosa	stomach
37	chr6:29609200-29610400	Enhancers	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links