Variant report

Variant	rs1558023
Chromosome Location	chr22:31441287-31441288
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	chr22:31440735..31445105-chr22:31479162..31482553,6	K562	blood:
2	chr22:31439219..31443340-chr22:31479162..31482694,5	K562	blood:

Variant related genes	Relation type
ENSG00000273387	Chromatin interaction
ENSG00000183963	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1004243	0.87[CEU][hapmap]
rs11089487	0.80[CEU][hapmap]
rs11089488	0.86[EUR][1000 genomes]
rs11703478	0.83[EUR][1000 genomes]
rs12330010	0.87[EUR][1000 genomes]
rs12484046	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13054770	0.85[EUR][1000 genomes]
rs2079429	0.85[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs35657209	0.85[EUR][1000 genomes]
rs35685997	0.86[EUR][1000 genomes]
rs4820934	0.96[CEU][hapmap];0.85[CHB][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs7284108	0.90[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs7284757	0.91[CEU][hapmap]
rs7285617	0.96[CEU][hapmap];0.82[CHB][hapmap];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs737930	1.00[CEU][hapmap];0.82[CHB][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs8135353	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs9619163	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9621173	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9621178	0.85[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs9621184	0.96[CEU][hapmap];0.85[YRI][hapmap];0.87[EUR][1000 genomes]
rs9621185	0.96[CEU][hapmap];0.88[EUR][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	nsv9896	chr22:31369204-31513933	Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
2	nsv966103	chr22:31410201-31452981	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv524366	chr22:31440703-31480069	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:31433600-31441400	Weak transcription	Spleen	Spleen
2	chr22:31433600-31442200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr22:31433600-31442600	Weak transcription	HSMM	muscle
4	chr22:31433800-31446000	Weak transcription	Duodenum Mucosa	Duodenum
5	chr22:31436000-31441400	Weak transcription	Colonic Mucosa	Colon
6	chr22:31436000-31441800	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr22:31436000-31442200	Weak transcription	Placenta	Placenta
8	chr22:31440000-31453200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr22:31440200-31441600	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr22:31440200-31441800	Enhancers	Lung	lung
11	chr22:31440200-31442800	Enhancers	Duodenum Smooth Muscle	Duodenum
12	chr22:31440200-31443000	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr22:31440200-31443200	Enhancers	Fetal Muscle Trunk	muscle
14	chr22:31440200-31443400	Enhancers	Fetal Muscle Leg	muscle
15	chr22:31440200-31443400	Enhancers	Right Ventricle	heart
16	chr22:31440200-31443400	Enhancers	Skeletal Muscle Male	skeletal muscle
17	chr22:31440200-31443600	Enhancers	Ovary	ovary
18	chr22:31440200-31443800	Enhancers	Left Ventricle	heart
19	chr22:31440200-31447400	Enhancers	Adipose Nuclei	Adipose
20	chr22:31440400-31442000	Weak transcription	K562	blood
21	chr22:31440400-31443000	Enhancers	Rectal Smooth Muscle	rectum
22	chr22:31440600-31441400	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr22:31440600-31442000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr22:31440600-31442000	Weak transcription	Right Atrium	heart
25	chr22:31440600-31442400	Weak transcription	A549	lung
26	chr22:31440600-31451000	Weak transcription	Osteobl	bone
27	chr22:31440800-31441400	Weak transcription	Colon Smooth Muscle	Colon
28	chr22:31440800-31442000	Weak transcription	Fetal Intestine Large	intestine
29	chr22:31440800-31442200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr22:31440800-31442200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr22:31440800-31442200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr22:31440800-31442200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr22:31440800-31442200	Weak transcription	Brain Anterior Caudate	brain
34	chr22:31440800-31442200	Enhancers	HepG2	liver
35	chr22:31440800-31442600	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr22:31440800-31442600	Weak transcription	NHLF	lung
37	chr22:31440800-31442800	Weak transcription	Fetal Intestine Small	intestine
38	chr22:31440800-31442800	Weak transcription	NHDF-Ad	bronchial
39	chr22:31440800-31443000	Enhancers	Stomach Smooth Muscle	stomach
40	chr22:31441000-31441400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr22:31441000-31442200	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr22:31441200-31441600	Weak transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links