Variant report

Variant	rs135474
Chromosome Location	chr22:32934569-32934570
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr22:32933708..32937841-chr22:33196276..33199119,4	MCF-7	breast:
2	chr22:32926204..32927722-chr22:32933778..32935343,2	MCF-7	breast:
3	chr22:32927446..32930330-chr22:32933647..32935342,2	MCF-7	breast:
4	chr22:32934249..32936537-chr22:32956952..32958878,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000100234	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs135123	1.00[CHB][hapmap];0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs135476	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs135478	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs135479	0.91[CEU][hapmap]
rs135480	0.91[ASN][1000 genomes]
rs135483	0.90[ASN][1000 genomes]
rs2105865	0.88[CHB][hapmap]
rs2213405	0.88[CHB][hapmap];0.92[JPT][hapmap];0.94[ASN][1000 genomes]
rs2239766	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2251400	0.92[ASN][1000 genomes]
rs2710380	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs2858339	0.82[ASN][1000 genomes]
rs5749457	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs5754137	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5754138	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5754139	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs762908	0.80[EUR][1000 genomes]
rs762909	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9609593	0.90[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv914981	chr22:32912277-32940660	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:32928400-32935800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr22:32928400-32935800	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr22:32928400-32937600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr22:32928600-32935600	Weak transcription	Fetal Intestine Large	intestine
5	chr22:32929000-32940800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr22:32929800-32935800	Weak transcription	Spleen	Spleen
7	chr22:32930000-32935200	Weak transcription	Fetal Heart	heart
8	chr22:32930800-32936200	Weak transcription	Colonic Mucosa	Colon
9	chr22:32931000-32935600	Weak transcription	Liver	Liver
10	chr22:32931000-32935800	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr22:32931000-32936200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr22:32931000-32937800	Weak transcription	Pancreas	Pancrea
13	chr22:32931000-32938200	Weak transcription	Colon Smooth Muscle	Colon
14	chr22:32931000-32938200	Weak transcription	Gastric	stomach
15	chr22:32931200-32937800	Weak transcription	Fetal Lung	lung
16	chr22:32931600-32935200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr22:32931800-32934800	Weak transcription	Adipose Nuclei	Adipose
18	chr22:32931800-32934800	Weak transcription	Hela-S3	cervix
19	chr22:32932000-32934600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr22:32932000-32935200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr22:32932200-32934600	Weak transcription	Right Atrium	heart
22	chr22:32932200-32935400	Weak transcription	Placenta	Placenta
23	chr22:32932200-32935800	Weak transcription	Left Ventricle	heart
24	chr22:32932200-32935800	Weak transcription	Right Ventricle	heart
25	chr22:32932800-32937800	Weak transcription	Stomach Smooth Muscle	stomach
26	chr22:32933800-32934800	Weak transcription	Fetal Muscle Leg	muscle
27	chr22:32933800-32935400	Weak transcription	Fetal Muscle Trunk	muscle
28	chr22:32934200-32942200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr22:32934400-32936800	Enhancers	HepG2	liver
30	chr22:32934400-32937200	Enhancers	Placenta Amnion	Placenta Amnion

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links