Variant report

Variant	rs1196161
Chromosome Location	chr2:182928555-182928556
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10196088	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10202990	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1040164	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1196166	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1196184	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs1196185	0.95[YRI][hapmap]
rs13424231	0.83[ASW][hapmap]
rs16822370	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2701664	0.95[YRI][hapmap]
rs2701665	0.95[YRI][hapmap]
rs2701666	0.92[CHB][hapmap];0.92[JPT][hapmap];0.80[YRI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2701671	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1196161	NCKAP1	cis	lymphoblastoid	seeQTL

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:182918800-182937400	Weak transcription	Thymus	Thymus
2	chr2:182921200-182928800	Weak transcription	Fetal Heart	heart
3	chr2:182926400-182928600	Enhancers	Liver	Liver
4	chr2:182926400-182928600	Enhancers	HepG2	liver
5	chr2:182926800-182929600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr2:182927200-182929400	Enhancers	Fetal Intestine Small	intestine
7	chr2:182928200-182929200	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr2:182928400-182929400	Enhancers	Left Ventricle	heart
9	chr2:182928400-182929600	Enhancers	Fetal Intestine Large	intestine
10	chr2:182928400-182929600	Enhancers	Skeletal Muscle Male	skeletal muscle
11	chr2:182928400-182930600	Enhancers	Fetal Lung	lung
12	chr2:182928400-182930600	Strong transcription	Fetal Thymus	thymus

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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