Variant report

Variant	rs9523410
Chromosome Location	chr13:92425967-92425968
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:91996442..92000452-chr13:92423521..92427515,3	K562	blood:
2	chr13:92425245..92427379-chr13:92459575..92462429,2	K562	blood:
3	chr13:92408850..92411747-chr13:92422307..92426184,4	K562	blood:
4	chr13:92416606..92418610-chr13:92424268..92426806,2	K562	blood:
5	chr13:92403864..92405502-chr13:92423546..92426360,2	K562	blood:

Variant related genes	Relation type
ENSG00000215417	Chromatin interaction

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs12865389	0.85[ASN][1000 genomes]
rs1332092	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1332093	0.87[ASN][1000 genomes]
rs1394888	0.81[CHB][hapmap]
rs1445396	0.92[CEU][hapmap];0.85[EUR][1000 genomes]
rs1445397	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1505564	0.89[ASN][1000 genomes]
rs1505565	0.88[CHB][hapmap]
rs1537026	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1542158	0.92[CEU][hapmap];0.84[TSI][hapmap];0.84[EUR][1000 genomes]
rs1550780	0.92[ASN][1000 genomes]
rs1555916	0.93[ASN][1000 genomes]
rs1813966	0.90[ASN][1000 genomes]
rs1827755	0.81[CHB][hapmap]
rs1831564	0.81[CHB][hapmap]
rs1847713	1.00[ASW][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.88[GIH][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.87[ASN][1000 genomes]
rs1854970	0.90[ASN][1000 genomes]
rs1854975	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1854980	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1854981	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1854986	0.89[ASN][1000 genomes]
rs1988500	0.81[CHB][hapmap]
rs1999231	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs2065193	0.95[CHB][hapmap]
rs2148531	0.95[ASN][1000 genomes]
rs2174504	0.95[CHB][hapmap];0.89[CHD][hapmap];0.81[JPT][hapmap];0.86[MEX][hapmap];0.93[ASN][1000 genomes]
rs2183865	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2352191	0.86[CHB][hapmap]
rs2352202	0.81[CHB][hapmap]
rs342697	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.85[ASN][1000 genomes]
rs342709	0.95[CHB][hapmap];0.91[ASN][1000 genomes]
rs345471	0.94[CHB][hapmap];0.87[ASN][1000 genomes]
rs3783054	1.00[CHB][hapmap];0.97[CHD][hapmap];0.81[JPT][hapmap];0.93[ASN][1000 genomes]
rs3864180	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4495989	0.87[ASN][1000 genomes]
rs4771843	1.00[CHB][hapmap];0.81[JPT][hapmap];0.91[ASN][1000 genomes]
rs4771844	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4773648	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs525661	0.80[CHD][hapmap]
rs7489587	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7982606	0.85[CHB][hapmap]
rs7984514	0.86[CHB][hapmap];0.89[CHD][hapmap]
rs7984987	0.86[CHB][hapmap]
rs7985482	0.85[CHB][hapmap]
rs7986386	0.92[CEU][hapmap]
rs7992519	0.85[CHB][hapmap]
rs7993839	0.86[CHB][hapmap]
rs7994873	0.86[CHB][hapmap]
rs7995950	0.92[CEU][hapmap]
rs8000830	0.85[CHB][hapmap]
rs9301750	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9301751	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9301753	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9301754	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9515966	0.94[ASN][1000 genomes]
rs9515967	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9515968	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9515971	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9515974	0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9515975	0.81[CHB][hapmap]
rs9515976	0.89[ASN][1000 genomes]
rs9515977	0.89[ASN][1000 genomes]
rs9515978	0.87[ASN][1000 genomes]
rs9515980	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9515981	1.00[ASW][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.88[GIH][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap]
rs9523402	0.86[CHB][hapmap]
rs9523404	1.00[CHB][hapmap];0.80[YRI][hapmap];0.91[ASN][1000 genomes]
rs9523405	0.91[ASN][1000 genomes]
rs9523407	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9523408	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9523412	0.86[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9523413	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9523417	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9523418	0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9523424	1.00[ASW][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.88[GIH][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.87[ASN][1000 genomes]
rs9523440	0.95[CHB][hapmap];0.81[GIH][hapmap]
rs9556124	0.85[CHB][hapmap]
rs9560849	0.90[CHB][hapmap];0.86[CHD][hapmap];0.81[ASN][1000 genomes]
rs9560850	0.81[ASN][1000 genomes]
rs9560851	0.81[ASN][1000 genomes]
rs9560854	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9560870	0.85[CHB][hapmap]
rs9560873	0.85[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049382	chr13:92024240-92521180	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv541873	chr13:92024240-92521180	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv2753383	chr13:92226599-92462699	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv529268	chr13:92267310-92531263	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv456065	chr13:92383193-92507887	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv562719	chr13:92383193-92507887	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv948820	chr13:92408505-92519053	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv524271	chr13:92419769-92501664	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv562720	chr13:92419769-92501664	Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv1036226	chr13:92421721-92501284	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv1053048	chr13:92421721-92501558	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv1053597	chr13:92421721-92502205	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:92417800-92426800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr13:92425200-92427200	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr13:92425200-92427400	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr13:92425400-92427200	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr13:92425400-92427200	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr13:92425600-92426000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr13:92425600-92427200	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr13:92425800-92427000	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr13:92425800-92427000	Enhancers	Fetal Brain Female	brain
10	chr13:92425800-92427200	Enhancers	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links