Variant report

Variant	rs634391
Chromosome Location	chr1:57759251-57759252
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	RCOR1	chr1:57758897-57759256	K562	blood:	n/a	n/a

Variant related genes	Relation type
DAB1	TF binding region

Extended variants
information (count: 63 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs11207002	0.95[CHB][hapmap];0.85[JPT][hapmap]
rs11207005	0.90[ASN][1000 genomes]
rs1149628	0.90[CHB][hapmap];0.84[JPT][hapmap]
rs11587719	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs12135189	0.95[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs1424473	0.84[GIH][hapmap];0.81[JPT][hapmap];0.81[MEX][hapmap];0.91[TSI][hapmap]
rs1811699	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs1811700	0.95[CHB][hapmap];0.86[CHD][hapmap];0.91[JPT][hapmap]
rs197627	0.91[CHB][hapmap];0.86[CHD][hapmap];0.85[JPT][hapmap]
rs197643	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs197647	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs197650	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs1991093	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2432690	0.89[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2656093	0.85[CEU][hapmap];0.81[JPT][hapmap];0.80[YRI][hapmap];0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2656094	0.81[CEU][hapmap]
rs2656095	0.95[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2764664	0.95[CHB][hapmap];0.91[CHD][hapmap];0.84[GIH][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs2764665	0.80[GIH][hapmap];0.81[JPT][hapmap];0.81[MEX][hapmap]
rs2764666	0.86[ASN][1000 genomes]
rs485723	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs486809	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs487566	0.99[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs492781	0.82[GIH][hapmap];0.81[JPT][hapmap];0.80[TSI][hapmap]
rs499397	0.81[CEU][hapmap];0.86[MEX][hapmap];0.81[AMR][1000 genomes]
rs501921	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs501970	0.84[ASN][1000 genomes]
rs508389	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs511707	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs545582	0.89[CEU][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.82[JPT][hapmap];0.89[TSI][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs545671	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs561531	0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs576038	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs581886	0.85[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs584147	0.81[JPT][hapmap];0.81[MEX][hapmap]
rs587046	0.85[CEU][hapmap];0.81[JPT][hapmap];0.80[YRI][hapmap];0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs595513	0.92[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.83[LWK][hapmap];0.86[MEX][hapmap];0.90[MKK][hapmap];0.91[TSI][hapmap];0.81[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs595568	0.83[CEU][hapmap];0.81[JPT][hapmap];0.83[YRI][hapmap];0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs597941	0.85[CEU][hapmap];0.87[GIH][hapmap];0.81[JPT][hapmap];0.82[MEX][hapmap];0.84[MKK][hapmap];0.91[TSI][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs610360	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs611276	0.81[CHB][hapmap];0.83[JPT][hapmap]
rs611606	0.92[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.94[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs620214	0.81[CEU][hapmap];0.94[YRI][hapmap];0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs622423	0.85[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs627550	0.81[JPT][hapmap]
rs627936	0.81[JPT][hapmap]
rs632935	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs637379	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs642526	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs643382	0.92[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.91[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs648607	0.95[CHB][hapmap];0.91[CHD][hapmap];0.82[GIH][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs657612	0.86[EUR][1000 genomes]
rs659069	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs663975	0.94[ASW][hapmap];0.85[CEU][hapmap];0.89[GIH][hapmap];0.81[JPT][hapmap];0.97[LWK][hapmap];0.86[MEX][hapmap];0.97[MKK][hapmap];0.91[TSI][hapmap];0.81[YRI][hapmap];0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs674966	1.00[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.80[TSI][hapmap];0.86[ASN][1000 genomes]
rs675075	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs680197	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs706385	0.85[CEU][hapmap];0.89[GIH][hapmap];0.81[JPT][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7529737	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs833626	0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs924850	0.95[CHB][hapmap];0.86[CHD][hapmap];0.91[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461628	chr1:57463326-57816489	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv546305	chr1:57463326-57816489	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs634391	C1orf175	cis	parietal	SCAN
rs634391	C1orf177	cis	parietal	SCAN
rs634391	ACOT11	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57747600-57769400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr1:57751600-57765600	Weak transcription	Fetal Intestine Small	intestine
3	chr1:57751600-57770600	Weak transcription	Fetal Intestine Large	intestine
4	chr1:57753000-57759400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr1:57756200-57759800	Weak transcription	Fetal Brain Female	brain
6	chr1:57759200-57760400	Enhancers	Fetal Brain Male	brain

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