Variant report

Variant	rs4648316
Chromosome Location	chr10:43859935-43859936
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:43856272..43860710-chr10:43899954..43905301,8	MCF-7	breast:
2	chr10:43859022..43861550-chr10:43877971..43879561,2	MCF-7	breast:
3	chr10:43856477..43861777-chr10:43890250..43893117,4	MCF-7	breast:
4	chr10:43798662..43800539-chr10:43858079..43860696,2	MCF-7	breast:
5	chr10:43843670..43847999-chr10:43855800..43861023,11	MCF-7	breast:
6	chr10:43859399..43861070-chr10:43862861..43865041,2	MCF-7	breast:
7	chr10:43855373..43860700-chr10:43866814..43875446,19	MCF-7	breast:
8	chr10:43855397..43862555-chr10:43901834..43907536,13	MCF-7	breast:
9	chr10:43857152..43860399-chr10:43897567..43900656,3	MCF-7	breast:
10	chr10:43812235..43813804-chr10:43859221..43860786,2	K562	blood:
11	chr10:43853906..43856900-chr10:43857802..43860629,2	MCF-7	breast:
12	chr10:43858596..43860755-chr10:43865023..43867031,2	K562	blood:
13	chr10:43858972..43861250-chr10:43879046..43881690,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000169813	Chromatin interaction
ENSG00000150201	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10409	0.92[ASN][1000 genomes]
rs10466239	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10899790	0.98[EUR][1000 genomes]
rs10899791	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10899793	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10899796	0.95[ASN][1000 genomes]
rs10899800	0.88[ASN][1000 genomes]
rs10899801	0.85[ASN][1000 genomes]
rs10899802	0.84[ASN][1000 genomes]
rs10899803	0.84[ASN][1000 genomes]
rs10899806	0.84[ASN][1000 genomes]
rs10899807	0.84[ASN][1000 genomes]
rs10899808	0.84[ASN][1000 genomes]
rs11238513	0.80[EUR][1000 genomes]
rs11238514	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11238525	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11238530	0.94[ASN][1000 genomes]
rs11238532	0.92[ASN][1000 genomes]
rs11238536	0.92[ASN][1000 genomes]
rs11814409	0.85[ASN][1000 genomes]
rs12220230	0.92[ASN][1000 genomes]
rs12220528	0.92[ASN][1000 genomes]
rs12250140	0.92[ASN][1000 genomes]
rs12254798	0.81[ASN][1000 genomes]
rs12261855	0.92[ASN][1000 genomes]
rs13376803	0.92[ASN][1000 genomes]
rs13376924	0.81[ASN][1000 genomes]
rs17153534	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1879312	0.86[ASN][1000 genomes]
rs2460558	0.81[ASN][1000 genomes]
rs28865415	0.85[ASN][1000 genomes]
rs2946992	0.81[ASN][1000 genomes]
rs4627023	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56198445	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57280597	0.92[EUR][1000 genomes]
rs59383062	1.00[ASN][1000 genomes]
rs60739384	0.81[ASN][1000 genomes]
rs7099802	0.92[ASN][1000 genomes]
rs7907179	0.92[ASN][1000 genomes]
rs7909500	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7921001	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430159	chr10:43291894-43946294	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
2	nsv916378	chr10:43622151-43868356	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv1043661	chr10:43626619-43890162	Bivalent Enhancer Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv540574	chr10:43626619-43890162	Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription 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 miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv1035873	chr10:43721143-43873664	Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv1044422	chr10:43731521-43860307	Bivalent/Poised TSS Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv895087	chr10:43783339-43982390	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
8	nsv831842	chr10:43846541-43987501	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:43858400-43860200	Weak transcription	Fetal Intestine Small	intestine
2	chr10:43858400-43863000	Weak transcription	HSMMtube	muscle
3	chr10:43858600-43860400	Weak transcription	Duodenum Mucosa	Duodenum
4	chr10:43858600-43860400	Weak transcription	Fetal Intestine Large	intestine
5	chr10:43858600-43861600	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr10:43858600-43861800	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr10:43858600-43891000	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links