Variant report

Variant	rs681362
Chromosome Location	chr7:125826603-125826604
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs478577	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs486029	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs489373	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs489655	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs490307	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs501455	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs501483	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs505793	0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs507803	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs515267	0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs518066	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs520807	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs553952	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs556478	0.97[EUR][1000 genomes]
rs559793	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs583860	0.87[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs585179	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs604505	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs611741	0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs613484	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs635680	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs642710	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs650045	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs653569	0.94[EUR][1000 genomes]
rs653984	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs653985	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs684665	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv608349	chr7:125340641-125848851	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv889159	chr7:125418926-125927493	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv429810	chr7:125488049-126131049	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1022976	chr7:125542173-125976125	Active TSS Strong transcription Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv2758615	chr7:125660809-125894865	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	esv2759561	chr7:125660809-125894865	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv529300	chr7:125669493-126587858	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
8	nsv1015179	chr7:125700894-125839530	Enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Weak transcription Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv889182	chr7:125780682-125975251	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	esv2761105	chr7:125819539-126001675	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs681362	PAX4	cis	parietal	SCAN
rs681362	RPS19BP1	cis	Frontal Cortex	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:125825600-125826800	Enhancers	HUES6 Cell Line	embryonic stem cell
2	chr7:125825800-125826800	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr7:125825800-125826800	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr7:125825800-125826800	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr7:125825800-125826800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr7:125826200-125826800	Enhancers	H1 Cell Line	embryonic stem cell
7	chr7:125826200-125826800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links