Variant report

Variant	rs7107144
Chromosome Location	chr11:119854514-119854515
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10892507	0.81[CHB][hapmap];0.84[ASN][1000 genomes]
rs10892511	0.85[EUR][1000 genomes]
rs1944497	0.85[EUR][1000 genomes]
rs2155168	0.88[CEU][hapmap];0.86[GIH][hapmap];0.96[MEX][hapmap];0.87[TSI][hapmap];0.84[EUR][1000 genomes]
rs3740724	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4482041	0.85[EUR][1000 genomes]
rs4938749	0.84[EUR][1000 genomes]
rs4938750	0.88[CEU][hapmap];0.86[GIH][hapmap];0.96[MEX][hapmap];0.87[TSI][hapmap];0.85[EUR][1000 genomes]
rs4938751	0.86[EUR][1000 genomes]
rs4938752	0.85[EUR][1000 genomes]
rs4938753	0.84[EUR][1000 genomes]
rs4938754	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4938755	0.85[EUR][1000 genomes]
rs4938756	0.85[EUR][1000 genomes]
rs7126918	0.85[EUR][1000 genomes]
rs7127194	0.87[CEU][hapmap];0.85[EUR][1000 genomes]
rs7929916	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054057	chr11:119781953-120519770	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv541178	chr11:119781953-120519770	Weak transcription Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv832285	chr11:119789595-119957724	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1037777	chr11:119842515-119898368	Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv541179	chr11:119842515-119898368	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1035918	chr11:119853069-119879255	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7107144	CXCR5	cis	parietal	SCAN
rs7107144	PHLDB1	cis	cerebellum	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:119846800-119858600	Weak transcription	Fetal Heart	heart
2	chr11:119851400-119855400	Enhancers	Brain Germinal Matrix	brain
3	chr11:119853000-119856200	Enhancers	Brain Substantia Nigra	brain
4	chr11:119853200-119854600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
5	chr11:119853200-119855200	Enhancers	Fetal Brain Female	brain
6	chr11:119853200-119855600	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr11:119853200-119856600	Enhancers	Brain Cingulate Gyrus	brain
8	chr11:119853200-119856800	Enhancers	Brain Hippocampus Middle	brain
9	chr11:119853400-119854600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr11:119853400-119854600	Enhancers	Adipose Nuclei	Adipose
11	chr11:119853400-119854600	Enhancers	Brain Anterior Caudate	brain
12	chr11:119853600-119854600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr11:119853600-119854600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
14	chr11:119854200-119854600	Enhancers	Brain Angular Gyrus	brain
15	chr11:119854200-119862200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr11:119854400-119859200	Weak transcription	Fetal Brain Male	brain
17	chr11:119854400-119859200	Weak transcription	Left Ventricle	heart
18	chr11:119854400-119860800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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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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