Variant report

Variant	rs342700
Chromosome Location	chr13:92426419-92426420
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	chr13:92416606..92418610-chr13:92424268..92426806,2	K562	blood:
4	chr13:92425988..92428874-chr13:92429270..92431594,2	K562	blood:

Variant related genes	Relation type
ENSG00000215417	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs11839974	0.82[JPT][hapmap];1.00[YRI][hapmap]
rs1445396	0.82[CHB][hapmap]
rs1537027	0.82[CHB][hapmap]
rs1542158	0.82[CHB][hapmap]
rs163928	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16946808	0.85[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs16946850	0.85[JPT][hapmap];1.00[YRI][hapmap]
rs16951984	0.85[JPT][hapmap]
rs1854974	0.85[JPT][hapmap];0.94[YRI][hapmap]
rs2989989	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs342697	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs342698	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342699	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342703	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs342705	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs463056	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs472095	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs481064	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs483826	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs505246	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs548544	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6492561	0.85[JPT][hapmap];1.00[YRI][hapmap]
rs7328464	0.85[JPT][hapmap];1.00[YRI][hapmap]
rs7330978	0.85[JPT][hapmap]
rs7331895	0.81[ASN][1000 genomes]
rs7985482	0.84[YRI][hapmap]
rs7986386	0.82[CHB][hapmap]
rs7992519	0.86[YRI][hapmap]
rs7993839	0.82[YRI][hapmap]
rs7995950	0.82[CHB][hapmap]
rs7996272	0.88[JPT][hapmap];1.00[YRI][hapmap]
rs7996921	0.81[YRI][hapmap]
rs7997028	0.84[YRI][hapmap]
rs8000830	0.82[YRI][hapmap]
rs9523406	0.82[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:15 , 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	chr13:92425600-92427200	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr13:92425800-92427000	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr13:92425800-92427000	Enhancers	Fetal Brain Female	brain
9	chr13:92425800-92427200	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr13:92426000-92427000	Enhancers	Brain Germinal Matrix	brain
11	chr13:92426200-92427000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr13:92426200-92427200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
13	chr13:92426400-92427000	Enhancers	Fetal Brain Male	brain
14	chr13:92426400-92427200	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr13:92426400-92427200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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