Variant report

Variant	rs17522440
Chromosome Location	chr1:84303894-84303895
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:84302389..84304857-chr1:84306926..84309267,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1010436	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10437027	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10489500	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10489505	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12728131	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12728368	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12735437	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12736562	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12742875	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12744687	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12744886	0.90[EUR][1000 genomes]
rs12746729	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12748928	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12754424	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1324487	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1569748	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17520771	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17521573	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17521594	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17521713	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17578175	0.86[AMR][1000 genomes]
rs17580638	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17580799	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17581022	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2143757	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2147391	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34561331	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35260485	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35531285	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35729141	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35906154	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs36120300	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71652653	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71652654	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17522440	CLCA1	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:84281400-84316600	Weak transcription	Pancreas	Pancrea
2	chr1:84285800-84305000	Weak transcription	Liver	Liver
3	chr1:84295400-84309000	Weak transcription	Primary T cells from cord blood	blood
4	chr1:84295400-84310200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr1:84297600-84313000	Weak transcription	Aorta	Aorta
6	chr1:84301800-84310200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr1:84303400-84304200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr1:84303800-84304000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
9	chr1:84303800-84304400	Enhancers	ES-I3 Cell Line	embryonic stem cell

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