Variant report

Variant	rs1557603
Chromosome Location	chr9:118052117-118052118
allele	A/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	RAD21	chr9:118052094-118052455	SK-N-SH_RA	brain:	n/a	n/a
2	TCF12	chr9:118051772-118053029	SK-N-SH	brain:	n/a	n/a
3	PBX3	chr9:118051925-118052606	SK-N-SH	brain:	n/a	n/a
4	MAX	chr9:118051864-118052560	SK-N-SH	brain:	n/a	n/a
5	PBX3	chr9:118051838-118052763	SK-N-SH	brain:	n/a	n/a
6	EP300	chr9:118051945-118052781	SK-N-SH	brain:	n/a	n/a
7	JUND	chr9:118052009-118052745	SK-N-SH	brain:	n/a	n/a
8	TCF12	chr9:118051877-118052686	SK-N-SH	brain:	n/a	n/a
9	EP300	chr9:118052071-118052891	SK-N-SH	brain:	n/a	n/a
10	MAX	chr9:118051975-118052511	SK-N-SH	brain:	n/a	n/a
11	GATA3	chr9:118051812-118053082	SK-N-SH	brain:	n/a	n/a
12	NFIC	chr9:118051758-118052838	SK-N-SH	brain:	n/a	chr9:118052347-118052364 chr9:118052348-118052364
13	TEAD4	chr9:118052009-118052821	SK-N-SH	brain:	n/a	n/a
14	TEAD4	chr9:118051972-118052801	SK-N-SH	brain:	n/a	n/a
15	JUND	chr9:118052038-118052751	SK-N-SH	brain:	n/a	n/a
16	NFIC	chr9:118052030-118052646	SK-N-SH	brain:	n/a	chr9:118052347-118052364 chr9:118052348-118052364
17	RXRA	chr9:118052005-118052754	SK-N-SH	brain:	n/a	n/a
18	YY1	chr9:118052012-118052491	SK-N-SH	brain:	n/a	n/a
19	FOSL2	chr9:118051996-118052774	SK-N-SH	brain:	n/a	n/a
20	GATA3	chr9:118051914-118053152	SK-N-SH	brain:	n/a	n/a

Variant related genes	Relation type
DEC1	TF binding region

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10817729	0.91[CEU][hapmap]
rs10982623	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs10982628	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10982629	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10982630	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10982634	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10982639	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10982642	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10982660	1.00[JPT][hapmap];1.00[AFR][1000 genomes]
rs12376346	0.91[CEU][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12377961	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12378362	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13288003	0.90[CEU][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs13301328	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17246222	0.82[CEU][hapmap];1.00[AFR][1000 genomes]
rs7044600	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71505534	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs7869917	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs955387	0.90[CEU][hapmap];1.00[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv615251	chr9:117975864-118514444	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr9:118042800-118052800	Weak transcription	Gastric	stomach
2	chr9:118047600-118052800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:118048600-118054000	Weak transcription	HSMM	muscle
4	chr9:118049000-118053800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr9:118049200-118052200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr9:118051800-118053000	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr9:118051800-118055200	Enhancers	Colon Smooth Muscle	Colon
8	chr9:118052000-118052200	Enhancers	NH-A	brain
9	chr9:118052000-118052800	Weak transcription	Fetal Lung	lung
10	chr9:118052000-118060000	Enhancers	Fetal Intestine Small	intestine

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