Variant report

Variant	rs584811
Chromosome Location	chr2:97069879-97069880
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 7 )

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

rs_ID	r²[population]
rs12614696	0.92[MKK][hapmap]
rs2301707	0.91[CEU][hapmap];0.90[GIH][hapmap]
rs3821051	0.91[CEU][hapmap];0.86[TSI][hapmap]
rs648225	0.95[EUR][1000 genomes]
rs772154	0.81[EUR][1000 genomes]
rs772175	0.91[CEU][hapmap];0.94[GIH][hapmap];0.89[TSI][hapmap]
rs772178	0.91[CEU][hapmap];0.94[GIH][hapmap];0.89[TSI][hapmap]
rs810057	0.91[CEU][hapmap];0.97[GIH][hapmap];0.83[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933671	chr2:96739308-97652262	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv1000780	chr2:96740430-97671395	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
3	nsv535826	chr2:96740430-97671395	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
4	nsv874677	chr2:96756547-97717345	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
5	nsv1001204	chr2:96766559-97728507	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
6	nsv535827	chr2:96766559-97728507	Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
7	nsv874679	chr2:96860971-97184160	Strong transcription Active TSS Flanking Active TSS Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
8	nsv508155	chr2:96934695-97138302	Bivalent Enhancer Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
9	esv3416952	chr2:97043127-97076830	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	esv3404635	chr2:97068275-97070773	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs584811	GPAT2	cis	Muscle Skeletal	GTEx
rs584811	ADRA2B	cis	Thyroid	GTEx
rs584811	CIAO1	cis	lymphoblastoid	seeQTL
rs584811	FAHD2CP	cis	lung	GTEx
rs584811	CIAO1	cis	Skin Sun Exposed Lower leg	GTEx
rs584811	MRPL30	cis	parietal	SCAN
rs584811	MGAT4A	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:97063000-97073200	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr2:97065600-97073000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr2:97065800-97073200	Weak transcription	Gastric	stomach
4	chr2:97065800-97073400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr2:97066000-97070200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr2:97066000-97070800	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr2:97066200-97073000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr2:97066600-97070400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr2:97069200-97071800	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr2:97069200-97072000	Enhancers	Fetal Muscle Leg	muscle
11	chr2:97069400-97070600	Enhancers	Esophagus	oesophagus
12	chr2:97069400-97074800	Enhancers	Fetal Thymus	thymus
13	chr2:97069400-97075000	Enhancers	Primary T cells fromperipheralblood	blood
14	chr2:97069600-97070400	Weak transcription	Pancreas	Pancrea
15	chr2:97069600-97070600	Weak transcription	Brain Cingulate Gyrus	brain
16	chr2:97069600-97070800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr2:97069600-97071400	Enhancers	Skeletal Muscle Male	skeletal muscle

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

what's new

Quick links