Variant report

Variant	rs7726085
Chromosome Location	chr5:147255321-147255322
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr5:147246099-147256428	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
SCGB3A2	TF binding region

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10058203	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1123380	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13355689	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13355726	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1368408	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1594666	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1594667	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17107353	0.81[EUR][1000 genomes]
rs17107362	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17107374	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17107376	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17107378	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17107379	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17107380	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17107381	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17107391	0.80[EUR][1000 genomes]
rs2116805	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2116806	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2163787	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2400646	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3910183	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3910207	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs41291429	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4551056	0.80[EUR][1000 genomes]
rs61012413	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6859234	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6859391	0.81[EUR][1000 genomes]
rs6877288	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73261378	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73261382	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7708635	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7709303	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[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	nsv1021356	chr5:147103627-147310531	Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1033907	chr5:147109014-147309076	Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv537916	chr5:147109014-147309076	Weak transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	esv3334831	chr5:147165950-147339765	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv933308	chr5:147173804-147269006	Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1028477	chr5:147255013-147416217	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:147234200-147262400	Weak transcription	Right Atrium	heart
2	chr5:147247600-147260200	Weak transcription	Aorta	Aorta
3	chr5:147249200-147255800	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr5:147254000-147255400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
5	chr5:147254000-147256200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr5:147254200-147255400	Flanking Active TSS	H1 Cell Line	embryonic stem cell
7	chr5:147254200-147255400	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
8	chr5:147254200-147255400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
9	chr5:147254200-147255400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
10	chr5:147254200-147255400	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
11	chr5:147254600-147257200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr5:147254800-147256000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr5:147254800-147256400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr5:147254800-147262200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr5:147255000-147255400	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
16	chr5:147255000-147256000	Enhancers	H9 Cell Line	embryonic stem cell
17	chr5:147255200-147256200	Enhancers	iPS-20b Cell Line	embryonic stem cell
18	chr5:147255200-147256600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
19	chr5:147255200-147262000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links