Variant report

Variant	rs856277
Chromosome Location	chr14:97432284-97432285
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1280080	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1683105	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17094781	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs710265	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7145909	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7146369	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs856257	0.94[CEU][hapmap];0.85[CHB][hapmap];0.84[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs856259	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs856269	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs856278	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs861322	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs863084	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044202	chr14:97155291-97683983	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv542179	chr14:97155291-97683983	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv948620	chr14:97334444-98133191	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv832867	chr14:97365919-97541763	Bivalent/Poised TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv902212	chr14:97413032-97474908	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1048462	chr14:97421360-97804598	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs856277	SERPINA13	cis	parietal	SCAN

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:97429000-97433400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
2	chr14:97429200-97433000	Enhancers	Primary T cells fromperipheralblood	blood
3	chr14:97429400-97433400	Enhancers	Primary T helper cells PMA-I stimulated	--
4	chr14:97429400-97433600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
5	chr14:97429400-97434000	Enhancers	Fetal Brain Male	brain
6	chr14:97429800-97433400	Enhancers	Brain Germinal Matrix	brain
7	chr14:97430000-97432800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr14:97430200-97433600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr14:97430600-97433400	Enhancers	Fetal Brain Female	brain
10	chr14:97430600-97433600	Enhancers	Primary T killer memory cells from peripheral blood	blood
11	chr14:97430600-97434000	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr14:97430800-97432600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr14:97431000-97432600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr14:97431200-97432400	Weak transcription	Primary B cells from peripheral blood	blood
15	chr14:97431200-97432400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr14:97431600-97432600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr14:97431800-97433400	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr14:97432000-97433400	Enhancers	H1 Cell Line	embryonic stem cell
19	chr14:97432200-97432800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
20	chr14:97432200-97433000	Enhancers	iPS-18 Cell Line	embryonic stem cell
21	chr14:97432200-97433000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr14:97432200-97433200	Enhancers	HUES48 Cell Line	embryonic stem cell
23	chr14:97432200-97433400	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr14:97432200-97433400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links