Variant report

Variant	rs2621456
Chromosome Location	chr4:96298575-96298576
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10461127	0.85[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10461128	1.00[JPT][hapmap]
rs2220105	1.00[JPT][hapmap]
rs2621457	0.86[MKK][hapmap]
rs4699264	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6532553	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7655075	0.85[CHB][hapmap]
rs7659804	1.00[JPT][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869528	chr4:95537649-96368018	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1001955	chr4:96216118-96445841	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
3	esv3431304	chr4:96295779-96299277	Weak transcription Enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2621456	GRASP	trans	parietal	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:96285200-96334600	Weak transcription	Aorta	Aorta
2	chr4:96285800-96305400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr4:96293400-96303400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr4:96295400-96302400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr4:96295400-96302400	Weak transcription	Fetal Lung	lung
6	chr4:96295800-96305400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr4:96296400-96316000	Weak transcription	Fetal Kidney	kidney
8	chr4:96297800-96298800	Enhancers	Brain Substantia Nigra	brain
9	chr4:96298000-96298600	Enhancers	Brain Inferior Temporal Lobe	brain
10	chr4:96298000-96298800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr4:96298000-96299000	Enhancers	Brain Angular Gyrus	brain
12	chr4:96298000-96299000	Enhancers	Brain Cingulate Gyrus	brain
13	chr4:96298200-96299000	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr4:96298200-96299200	Enhancers	Brain Hippocampus Middle	brain
15	chr4:96298400-96299000	Enhancers	Fetal Brain Female	brain
16	chr4:96298400-96303800	Weak transcription	Brain Anterior Caudate	brain

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

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