Variant report

Variant	rs4893935
Chromosome Location	chr2:178240601-178240602
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:178240211..178240934-chr2:178249889..178250515,2	MCF-7	breast:
2	chr2:178197940..178199479-chr2:178240328..178243409,3	K562	blood:
3	chr2:178238921..178241559-chr2:178255425..178258209,2	K562	blood:
4	chr2:178239507..178242953-chr2:178243705..178247921,4	K562	blood:

Variant related genes	Relation type
ENSG00000213963	Chromatin interaction
ENSG00000018510	Chromatin interaction
ENSG00000116044	Chromatin interaction

Extended variants
information (count: 103 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs10165785	0.84[ASN][1000 genomes]
rs10170546	0.81[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs10170667	0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs10176632	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10194648	0.80[ASN][1000 genomes]
rs10208150	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10497502	0.80[CHD][hapmap];0.95[JPT][hapmap]
rs10497503	0.98[CHD][hapmap];0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs10497508	0.82[CHB][hapmap];0.80[CHD][hapmap];0.95[JPT][hapmap]
rs10803909	0.84[ASN][1000 genomes]
rs10930792	0.82[ASN][1000 genomes]
rs11893448	0.86[ASN][1000 genomes]
rs12104588	0.91[ASN][1000 genomes]
rs12469386	0.91[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];0.88[MKK][hapmap];0.83[ASN][1000 genomes]
rs12611938	0.80[ASN][1000 genomes]
rs12614820	0.80[ASN][1000 genomes]
rs12615367	0.85[JPT][hapmap]
rs12616093	0.85[JPT][hapmap]
rs12616443	0.86[ASN][1000 genomes]
rs12618139	0.80[CHD][hapmap];0.90[JPT][hapmap]
rs12620035	0.84[ASN][1000 genomes]
rs12693120	0.86[ASN][1000 genomes]
rs12990594	0.82[MEX][hapmap]
rs12990729	0.82[ASN][1000 genomes]
rs12996447	0.89[ASN][1000 genomes]
rs13000048	0.91[CHB][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs13004955	0.91[CHD][hapmap];0.80[JPT][hapmap]
rs13027959	0.89[ASN][1000 genomes]
rs13431091	0.83[YRI][hapmap]
rs1348848	0.98[CHD][hapmap];0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs1348849	0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs1348850	0.91[CHB][hapmap];0.87[CHD][hapmap];0.83[GIH][hapmap];0.80[JPT][hapmap]
rs1374437	0.98[CHD][hapmap];0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs1453370	0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs1453371	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1453373	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16865203	0.82[CHB][hapmap];0.80[CHD][hapmap];0.95[JPT][hapmap]
rs16865291	0.95[JPT][hapmap]
rs16865328	0.85[JPT][hapmap]
rs16865331	0.85[JPT][hapmap]
rs1901824	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1901825	1.00[CEU][hapmap];0.89[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1901826	1.00[CEU][hapmap];0.82[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.82[TSI][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1901829	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1979058	0.82[ASN][1000 genomes]
rs2034678	0.86[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs2060929	0.81[CHB][hapmap];0.98[CHD][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs2084233	0.89[JPT][hapmap]
rs2121430	0.81[ASW][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];0.94[LWK][hapmap];0.87[YRI][hapmap];0.86[ASN][1000 genomes]
rs2166558	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs2197611	0.80[ASN][1000 genomes]
rs2364845	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2364854	0.91[CHB][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs3213945	0.85[JPT][hapmap]
rs3769995	0.95[JPT][hapmap]
rs3769996	0.80[CHD][hapmap];0.95[JPT][hapmap]
rs3769997	0.95[JPT][hapmap]
rs3770002	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs3813259	0.81[CHB][hapmap];0.98[CHD][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs3902850	0.83[ASN][1000 genomes]
rs4243388	0.81[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs4341974	0.84[ASN][1000 genomes]
rs4893821	1.00[CEU][hapmap];0.81[CHB][hapmap];0.98[CHD][hapmap];0.90[JPT][hapmap];0.91[MEX][hapmap];0.82[TSI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4893822	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs4893823	0.81[CHB][hapmap];0.98[CHD][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs4893824	0.84[ASN][1000 genomes]
rs4893825	0.98[CHD][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs4893931	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4893932	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4893934	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4893936	1.00[CEU][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4893938	0.91[ASN][1000 genomes]
rs4893941	0.86[ASN][1000 genomes]
rs4893944	0.85[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs4893945	0.85[ASN][1000 genomes]
rs4893946	0.86[ASN][1000 genomes]
rs4893950	0.98[CHD][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs4893954	0.83[ASN][1000 genomes]
rs4893957	0.98[CHD][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs4893959	0.80[JPT][hapmap]
rs4893961	0.91[CHB][hapmap];0.80[JPT][hapmap]
rs4893962	0.91[CHB][hapmap];0.80[JPT][hapmap]
rs56942680	0.81[ASN][1000 genomes]
rs58483300	0.81[ASN][1000 genomes]
rs59208652	0.84[ASN][1000 genomes]
rs59578457	0.80[ASN][1000 genomes]
rs59751564	0.83[ASN][1000 genomes]
rs60733259	0.81[ASN][1000 genomes]
rs6433670	0.80[ASN][1000 genomes]
rs6710575	0.91[CHD][hapmap];0.80[JPT][hapmap]
rs6742951	0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs7565022	0.86[ASN][1000 genomes]
rs7573763	0.91[ASN][1000 genomes]
rs7586051	0.86[ASN][1000 genomes]
rs7587604	0.91[CHB][hapmap];0.90[JPT][hapmap];0.87[YRI][hapmap];0.86[ASN][1000 genomes]
rs7591807	0.81[CHB][hapmap];0.98[CHD][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs7604673	0.91[CHD][hapmap];0.80[JPT][hapmap]
rs7606235	0.80[JPT][hapmap]
rs7607450	0.80[ASN][1000 genomes]
rs8941	0.80[JPT][hapmap]
rs952746	0.91[CHB][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.84[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs9679607	0.83[ASN][1000 genomes]
rs9789582	0.82[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4893935	CCDC141	cis	parietal	SCAN
rs4893935	TTN	cis	parietal	SCAN
rs4893935	TTC30B	cis	parietal	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:178203400-178244400	Weak transcription	HSMM	muscle
2	chr2:178218000-178256200	Weak transcription	HepG2	liver
3	chr2:178232800-178244400	Weak transcription	Dnd41	blood
4	chr2:178235400-178256600	Weak transcription	Primary T cells from cord blood	blood
5	chr2:178235800-178244600	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr2:178237400-178244400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr2:178237400-178244400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr2:178239400-178244800	Weak transcription	Aorta	Aorta
9	chr2:178239600-178254800	Weak transcription	A549	lung
10	chr2:178240000-178244800	Weak transcription	K562	blood
11	chr2:178240400-178243000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links