Variant report

Variant	rs6427160
Chromosome Location	chr1:168892181-168892182
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1014249	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10737544	0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs10919019	0.91[JPT][hapmap]
rs12096067	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12128029	0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs1407478	0.84[ASN][1000 genomes]
rs1407480	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2093486	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2900884	0.86[EUR][1000 genomes]
rs4656170	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4656625	0.82[ASN][1000 genomes]
rs6427161	0.84[ASN][1000 genomes]
rs6692447	0.81[ASN][1000 genomes]
rs67169143	0.83[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6427160	XCL1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:168887800-168893400	Enhancers	HepG2	liver
2	chr1:168889000-168892400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:168889000-168892600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr1:168889400-168892600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:168890400-168893000	Weak transcription	Hela-S3	cervix
6	chr1:168890600-168893600	Enhancers	A549	lung
7	chr1:168890600-168894400	Enhancers	HUVEC	blood vessel
8	chr1:168891400-168893400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr1:168891600-168892600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr1:168891800-168892200	Weak transcription	Fetal Kidney	kidney
11	chr1:168891800-168892600	Weak transcription	Fetal Lung	lung
12	chr1:168891800-168892800	Weak transcription	Stomach Mucosa	stomach
13	chr1:168891800-168893000	Weak transcription	Right Atrium	heart

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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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