Variant report

Variant	rs34493019
Chromosome Location	chr6:25714959-25714960
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs13191296	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13201341	0.86[EUR][1000 genomes]
rs13213957	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs68006638	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883488	chr6:25592489-25731691	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
4	nsv427747	chr6:25641380-25908218	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv526061	chr6:25708714-25725481	Active TSS Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs34493019	BTN3A2///BTN3A3	Cis_1M	lymphoblastoid	RTeQTL
rs34493019	BTN3A2	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25701800-25715400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr6:25713000-25718200	Enhancers	Brain Germinal Matrix	brain
3	chr6:25713200-25715000	Enhancers	Fetal Brain Male	brain
4	chr6:25713400-25715000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:25713400-25715000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr6:25713600-25715400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr6:25713800-25715600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr6:25714000-25716400	Enhancers	HUVEC	blood vessel
9	chr6:25714200-25715800	Enhancers	HepG2	liver
10	chr6:25714400-25716000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr6:25714800-25715400	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr6:25714800-25715600	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr6:25714800-25715800	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr6:25714800-25715800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr6:25714800-25715800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr6:25714800-25716200	Enhancers	Primary hematopoietic stem cells short term culture	blood

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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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