Variant report

Variant	rs6540695
Chromosome Location	chr1:211799043-211799044
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:211751184..211754739-chr1:211795904..211800461,6	K562	blood:
2	chr1:211751146..211751864-chr1:211798100..211799087,3	K562	blood:
3	chr1:211793145..211800078-chr1:211800841..211805263,11	K562	blood:
4	chr1:211688497..211689073-chr1:211798450..211799183,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170385	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11119784	0.85[ASN][1000 genomes]
rs12724388	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12736496	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12751701	1.00[CEU][hapmap];0.81[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1470344	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1470345	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2027226	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2184844	1.00[JPT][hapmap]
rs34603396	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs35507775	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4951537	0.86[CEU][hapmap]
rs61851765	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6540693	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6540694	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6659316	1.00[JPT][hapmap]
rs6664930	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6666442	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6673372	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs749964	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7511687	1.00[JPT][hapmap]
rs7516189	1.00[JPT][hapmap]
rs7516924	0.81[ASN][1000 genomes]
rs7521959	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7539988	1.00[JPT][hapmap]
rs7554588	1.00[JPT][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6540695	C1orf107	cis	cerebellum	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:211790400-211803600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:211793400-211803000	Weak transcription	Fetal Intestine Small	intestine
3	chr1:211795200-211800000	Weak transcription	Left Ventricle	heart
4	chr1:211795200-211802400	Weak transcription	Right Atrium	heart
5	chr1:211795200-211803400	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr1:211795400-211800200	Weak transcription	Fetal Muscle Trunk	muscle
7	chr1:211796600-211803600	Weak transcription	Spleen	Spleen
8	chr1:211797000-211800000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr1:211797200-211800400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr1:211798600-211800200	Weak transcription	K562	blood
11	chr1:211798600-211801200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr1:211798600-211803800	Weak transcription	Hela-S3	cervix
13	chr1:211798800-211801800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links