Variant report

Variant	rs7031089
Chromosome Location	chr9:73469641-73469642
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10118762	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1034538	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10780973	0.90[ASN][1000 genomes]
rs10780979	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1415225	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2210938	0.92[EUR][1000 genomes]
rs4478638	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs540651	0.83[LWK][hapmap]
rs6560155	0.90[ASN][1000 genomes]
rs7032799	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7850924	0.90[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7873256	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7031089	C9orf135	cis	parietal	SCAN
rs7031089	JMJD5	trans	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:73427600-73483400	Weak transcription	Aorta	Aorta
2	chr9:73448200-73473600	Weak transcription	Fetal Kidney	kidney
3	chr9:73450600-73477600	Weak transcription	Ovary	ovary
4	chr9:73455600-73480600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:73457200-73485200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr9:73457800-73480600	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr9:73461400-73482000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr9:73463600-73471000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:73463600-73472800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr9:73466200-73483000	Weak transcription	Fetal Heart	heart
11	chr9:73469200-73469800	Enhancers	H1 Cell Line	embryonic stem cell
12	chr9:73469200-73470000	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr9:73469200-73470400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr9:73469400-73470000	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr9:73469400-73470200	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr9:73469600-73470000	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr9:73469600-73470000	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr9:73469600-73470200	Enhancers	iPS-20b 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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