Variant report

Variant	rs61731030
Chromosome Location	chr5:90098692-90098693
allele	A/G
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	CTCF	chr5:90098599-90098831	A549	lung:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
2	POLR2A	chr5:90098477-90098712	K562	blood:	n/a	n/a
3	RAD21	chr5:90098328-90099030	SK-N-SH	brain:	n/a	chr5:90098731-90098750 chr5:90098735-90098744 chr5:90098734-90098747
4	CTCF	chr5:90098551-90098818	K562	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
5	BRCA1	chr5:90098539-90098758	Hela-S3	cervix:	n/a	n/a
6	CTCF	chr5:90098620-90098770	AG04450	lung:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
7	CTCF	chr5:90098620-90098770	WI-38	lung:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
8	CTCF	chr5:90098680-90098830	HCFaa	heart:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
9	CTCF	chr5:90098602-90098812	GM19240	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
10	CTCF	chr5:90098596-90098845	LNCaP	prostate:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
11	CTCF	chr5:90098680-90098830	GM12878	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
12	CTCF	chr5:90098620-90098770	NHEK	skin:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
13	CTCF	chr5:90098640-90098790	GM12872	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
14	CTCF	chr5:90098524-90098851	H1-hESC	embryonic stem cell:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
15	CTCF	chr5:90098640-90098790	GM12873	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
16	CTCF	chr5:90098660-90098810	K562	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
17	ELF1	chr5:90098622-90098786	HepG2	liver:	n/a	n/a
18	RAD21	chr5:90098615-90098849	HepG2	liver:	n/a	chr5:90098731-90098750 chr5:90098735-90098744 chr5:90098734-90098747
19	CTCF	chr5:90098560-90098710	HAc	cerebellar:	n/a	n/a
20	CTCF	chr5:90098583-90098837	MCF-7	breast:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
21	CTCF	chr5:90098606-90098866	K562	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
22	CTCF	chr5:90098384-90099043	SK-N-SH	brain:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
23	CTCF	chr5:90098684-90098781	MCF-7	breast:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
24	CTCF	chr5:90098660-90098810	Caco-2	colon:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
25	CTCF	chr5:90098660-90098810	HRPEpiC	eye:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
26	CTCF	chr5:90098574-90098879	Medullo	brain:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
27	RAD21	chr5:90098545-90098874	HepG2	liver:	n/a	chr5:90098731-90098750 chr5:90098735-90098744 chr5:90098734-90098747
28	CTCF	chr5:90098680-90098830	AG04450	lung:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
29	CTCF	chr5:90098660-90098810	HMF	breast:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
30	CTCF	chr5:90098537-90098795	T-47D	breast:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
31	CTCF	chr5:90098660-90098810	RPTEC	kidney:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
32	CTCF	chr5:90098600-90098750	GM12870	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747
33	CTCF	chr5:90098620-90098770	HUVEC	blood vessel:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
34	CTCF	chr5:90098536-90098869	SK-N-SH_RA	brain:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
35	CTCF	chr5:90098620-90098770	SK-N-SH_RA	brain:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
36	CTCF	chr5:90098539-90098914	IMR90	lung:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
37	CTCF	chr5:90098606-90098840	HepG2	liver:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
38	RUNX3	chr5:90098620-90098854	GM12878	blood:	n/a	n/a
39	CTCF	chr5:90098660-90098810	GM12878	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
40	CTCF	chr5:90098680-90098830	NHDF-neo	bronchial:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
41	CTCF	chr5:90098640-90098790	HCPEpiC	choroid plexus:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
42	CTCF	chr5:90098640-90098790	K562	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
43	RAD21	chr5:90098486-90098813	H1-hESC	embryonic stem cell:	n/a	chr5:90098731-90098750 chr5:90098735-90098744 chr5:90098734-90098747
44	CTCF	chr5:90098589-90098828	ProgFib	skin:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
45	CTCF	chr5:90098640-90098790	GM12864	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
46	CTCF	chr5:90098620-90098770	HFF	foreskin:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
47	CTCF	chr5:90098610-90098799	GM19238	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
48	CTCF	chr5:90098660-90098810	GM06990	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
49	CTCF	chr5:90098594-90098849	GM13977	blood:	n/a	chr5:90098735-90098743 chr5:90098730-90098748 chr5:90098731-90098747 chr5:90098732-90098753
50	ZKSCAN1	chr5:90098638-90098753	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr5:90098345..90099139-chr5:90145555..90146337,4	MCF-7	breast:
2	chr5:90087371..90091009-chr5:90095949..90098739,3	K562	blood:
3	chr5:90088753..90091420-chr5:90094556..90098739,3	K562	blood:
4	chr5:90096168..90100170-chr5:90100942..90103873,3	K562	blood:

Variant related genes	Relation type
GPR98	TF binding region

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs1878879	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432750	chr5:89410113-90137144	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv529544	chr5:89523963-90412409	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv531965	chr5:89886550-90145002	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
4	nsv882367	chr5:89956991-90209824	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
5	nsv934323	chr5:89968158-90111853	Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
6	nsv1015449	chr5:89968626-90219398	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
7	nsv1031718	chr5:89999033-90099868	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
8	nsv517049	chr5:90003131-90262475	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:90051800-90105000	Weak transcription	Brain Cingulate Gyrus	brain
2	chr5:90090800-90101200	Weak transcription	K562	blood
3	chr5:90090800-90104400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr5:90092000-90106400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr5:90092400-90103400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr5:90092400-90122200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr5:90092600-90098800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr5:90096200-90099000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr5:90096600-90103400	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr5:90097200-90105400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr5:90098000-90103600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr5:90098000-90111400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr5:90098600-90099000	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr5:90098600-90103200	Weak transcription	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links