Variant report

Variant	rs6005851
Chromosome Location	chr22:29124410-29124411
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr22:29123719..29125276-chr22:29194565..29196518,3	MCF-7	breast:
2	chr22:29121818..29125415-chr22:29136327..29139061,3	MCF-7	breast:
3	chr22:29123587..29125370-chr22:29195302..29198150,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000183765	Chromatin interaction
ENSG00000226471	Chromatin interaction
ENSG00000100219	Chromatin interaction
ENSG00000100209	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs16986630	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16986646	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16986711	0.84[ASN][1000 genomes]
rs16986719	0.84[ASN][1000 genomes]
rs16986739	0.84[ASN][1000 genomes]
rs17882867	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17883328	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1805129	1.00[ASN][1000 genomes]
rs59025667	0.84[ASN][1000 genomes]
rs6005844	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6005846	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60740682	0.82[ASN][1000 genomes]
rs9625587	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916473	chr22:28837041-29215603	Weak transcription Bivalent Enhancer Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
2	nsv9895	chr22:29029961-29184277	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv1064624	chr22:29065528-29130728	Active TSS Flanking Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1064079	chr22:29065528-29456059	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
5	nsv513775	chr22:29083731-29137822	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv834169	chr22:29095446-29303929	Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
7	nsv517951	chr22:29105558-29135889	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:29076200-29137600	Weak transcription	Esophagus	oesophagus
2	chr22:29076400-29129400	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr22:29079600-29130200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr22:29082800-29137600	Weak transcription	Spleen	Spleen
5	chr22:29083000-29126600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr22:29090200-29129000	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr22:29090600-29137200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr22:29090600-29137200	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr22:29093600-29132000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr22:29093800-29126600	Weak transcription	Gastric	stomach
11	chr22:29094600-29125000	Strong transcription	HUES6 Cell Line	embryonic stem cell
12	chr22:29097000-29130800	Strong transcription	HUES64 Cell Line	embryonic stem cell
13	chr22:29099800-29129000	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr22:29100400-29137200	Weak transcription	Pancreas	Pancrea
15	chr22:29101600-29131000	Strong transcription	Dnd41	blood
16	chr22:29103600-29124800	Weak transcription	GM12878-XiMat	blood
17	chr22:29103600-29132200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr22:29105600-29137200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr22:29106000-29129200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr22:29107600-29136800	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr22:29108400-29137200	Weak transcription	Right Atrium	heart
22	chr22:29108800-29126600	Weak transcription	Fetal Muscle Leg	muscle
23	chr22:29108800-29129200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr22:29109000-29129800	Weak transcription	Fetal Lung	lung
25	chr22:29109000-29137000	Weak transcription	HMEC	breast
26	chr22:29109000-29137200	Weak transcription	Liver	Liver
27	chr22:29109000-29137200	Weak transcription	HSMM	muscle
28	chr22:29109200-29128800	Weak transcription	NHEK	skin
29	chr22:29110600-29125200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
30	chr22:29111000-29124600	Weak transcription	NHDF-Ad	bronchial
31	chr22:29111200-29136600	Weak transcription	HUVEC	blood vessel
32	chr22:29112000-29137600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr22:29112200-29129400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr22:29113800-29131200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr22:29114000-29125200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr22:29114200-29125400	Strong transcription	HUES48 Cell Line	embryonic stem cell
37	chr22:29115200-29126000	Weak transcription	Stomach Mucosa	stomach
38	chr22:29116600-29124600	Strong transcription	Fetal Intestine Small	intestine
39	chr22:29116600-29125200	Strong transcription	H9 Cell Line	embryonic stem cell
40	chr22:29116600-29125200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr22:29116600-29125400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr22:29117000-29129200	Weak transcription	Thymus	Thymus
43	chr22:29117200-29129400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr22:29117200-29129800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr22:29117200-29136800	Weak transcription	Primary T cells fromperipheralblood	blood
46	chr22:29117200-29137200	Weak transcription	NHLF	lung
47	chr22:29118000-29137600	Weak transcription	Ovary	ovary
48	chr22:29118200-29137200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr22:29118600-29124800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr22:29118800-29124600	Strong transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links