Variant report

Variant	rs17107233
Chromosome Location	chr5:147088555-147088556
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs12172994	0.82[EUR][1000 genomes]
rs17107218	0.82[EUR][1000 genomes]
rs17107219	0.82[EUR][1000 genomes]
rs1835942	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55681447	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6580493	0.92[EUR][1000 genomes]
rs68043636	0.82[EUR][1000 genomes]
rs6874858	0.90[EUR][1000 genomes]
rs6874866	0.92[EUR][1000 genomes]
rs72835155	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72835159	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72835161	0.83[ASN][1000 genomes]
rs72835162	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72835163	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7708655	0.92[EUR][1000 genomes]
rs7716745	0.92[EUR][1000 genomes]
rs7723843	0.92[EUR][1000 genomes]
rs7726900	0.92[EUR][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs17107233	JAKMIP2	cis	cerebellum	SCAN
rs17107233	TNIP1	cis	parietal	SCAN
rs17107233	CAMK2A	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:147078600-147146000	Weak transcription	Primary T cells from cord blood	blood
2	chr5:147079600-147091600	Weak transcription	Primary hematopoietic stem cells	blood
3	chr5:147079600-147101200	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr5:147085000-147089200	Weak transcription	Brain Hippocampus Middle	brain
5	chr5:147085000-147093200	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr5:147085600-147092800	Weak transcription	Brain Angular Gyrus	brain
7	chr5:147086000-147091600	Weak transcription	Brain Substantia Nigra	brain
8	chr5:147088000-147088600	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr5:147088000-147088800	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr5:147088000-147088800	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr5:147088000-147088800	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr5:147088200-147088600	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr5:147088400-147088800	Enhancers	iPS-15b Cell Line	embryonic stem cell

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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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