Variant report

Variant	rs13419929
Chromosome Location	chr2:210441906-210441907
allele	G/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	E2F4	chr2:210441854-210442249	MCF10A-Er-Src	breast:	n/a	n/a
2	RAD21	chr2:210441165-210442892	SK-N-SH	brain:	n/a	chr2:210442282-210442301
3	CTCF	chr2:210441820-210441970	HFF	foreskin:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:210290034..210290731-chr2:210441735..210442573,2	MCF-7	breast:
2	chr2:210288774..210289563-chr2:210441780..210442672,2	MCF-7	breast:

Variant related genes	Relation type
MAP2	TF binding region
ENSG00000078018	Chromatin interaction

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs10172200	0.93[JPT][hapmap]
rs10196314	0.94[JPT][hapmap]
rs10196600	0.94[JPT][hapmap]
rs10198751	0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs10204207	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10206817	1.00[JPT][hapmap]
rs10207186	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10490021	0.93[JPT][hapmap]
rs10932305	0.94[JPT][hapmap]
rs11682692	0.90[JPT][hapmap]
rs11692075	0.94[JPT][hapmap]
rs11885999	0.82[EUR][1000 genomes]
rs12614031	0.94[JPT][hapmap]
rs12615372	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12616589	0.94[JPT][hapmap]
rs12618080	0.93[JPT][hapmap]
rs12620654	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12622979	0.81[ASN][1000 genomes]
rs12623006	0.87[EUR][1000 genomes]
rs12992342	0.81[ASN][1000 genomes]
rs13385585	0.94[JPT][hapmap]
rs1396779	0.89[ASN][1000 genomes]
rs1509465	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs1509468	0.87[JPT][hapmap]
rs1509469	0.94[JPT][hapmap]
rs16843022	0.82[CEU][hapmap]
rs16843329	0.83[JPT][hapmap]
rs16843351	1.00[JPT][hapmap]
rs16843354	0.93[JPT][hapmap]
rs16843360	0.93[JPT][hapmap]
rs16843382	0.93[JPT][hapmap]
rs16843453	0.93[JPT][hapmap]
rs16843614	0.93[JPT][hapmap]
rs16843618	0.93[JPT][hapmap]
rs169636	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2048250	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2191910	0.93[JPT][hapmap]
rs2239552	0.93[JPT][hapmap]
rs2239553	0.94[JPT][hapmap]
rs2239672	0.93[JPT][hapmap]
rs2268042	0.93[JPT][hapmap]
rs2268044	0.93[JPT][hapmap]
rs2271252	0.93[JPT][hapmap]
rs2286849	0.93[JPT][hapmap]
rs2286850	0.93[JPT][hapmap]
rs2300154	0.93[JPT][hapmap]
rs2366112	1.00[JPT][hapmap]
rs2663648	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2663649	0.82[JPT][hapmap]
rs2663651	0.83[JPT][hapmap]
rs2663653	0.84[JPT][hapmap]
rs2663659	0.91[CEU][hapmap];1.00[JPT][hapmap]
rs2710474	0.81[ASN][1000 genomes]
rs2710475	0.80[ASN][1000 genomes]
rs2710477	0.92[JPT][hapmap]
rs2710479	0.83[JPT][hapmap]
rs2710482	0.93[JPT][hapmap]
rs2710486	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs288070	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs288071	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs288073	0.90[EUR][1000 genomes]
rs288079	1.00[CEU][hapmap];0.83[CHB][hapmap];0.93[JPT][hapmap];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs288081	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs288084	0.86[ASN][1000 genomes]
rs288087	1.00[CEU][hapmap];0.83[CHB][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs288088	0.84[ASN][1000 genomes]
rs288089	0.88[EUR][1000 genomes]
rs288094	1.00[CEU][hapmap]
rs288096	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs34850994	0.80[ASN][1000 genomes]
rs3738935	0.87[JPT][hapmap]
rs3754597	0.93[JPT][hapmap]
rs3768810	0.93[JPT][hapmap]
rs3768813	0.93[JPT][hapmap]
rs3768814	0.93[JPT][hapmap]
rs3768815	0.93[JPT][hapmap]
rs3768816	0.93[JPT][hapmap]
rs3768822	0.93[JPT][hapmap]
rs3768826	0.93[JPT][hapmap]
rs3768832	0.93[JPT][hapmap]
rs3768833	0.93[JPT][hapmap]
rs3768834	0.93[JPT][hapmap]
rs3768835	0.93[JPT][hapmap]
rs3820746	0.92[JPT][hapmap]
rs3820748	0.93[JPT][hapmap]
rs4673486	0.93[JPT][hapmap]
rs56023260	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs56164239	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56677957	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56853570	0.81[ASN][1000 genomes]
rs57781584	0.89[ASN][1000 genomes]
rs58636345	0.82[ASN][1000 genomes]
rs60359169	0.81[ASN][1000 genomes]
rs60497472	0.89[ASN][1000 genomes]
rs6709925	0.93[JPT][hapmap]
rs6717554	0.93[JPT][hapmap]
rs6720659	0.93[JPT][hapmap]
rs6724834	0.94[JPT][hapmap]
rs6726061	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6733319	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs6746029	0.93[JPT][hapmap]
rs723683	0.93[JPT][hapmap]
rs73071071	0.81[ASN][1000 genomes]
rs73071085	0.81[ASN][1000 genomes]
rs741006	0.93[JPT][hapmap]
rs741007	0.93[JPT][hapmap]
rs7594601	0.93[JPT][hapmap]
rs906831	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9288410	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs962475	0.82[JPT][hapmap]
rs994862	0.93[JPT][hapmap]

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:210435200-210442200	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr2:210440400-210442200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr2:210440400-210443000	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr2:210441200-210442800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr2:210441200-210443200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr2:210441600-210442400	Enhancers	Brain Germinal Matrix	brain
7	chr2:210441600-210444000	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr2:210441800-210442600	Enhancers	Fetal Brain Male	brain
9	chr2:210441800-210443200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr2:210441800-210443600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links