Variant report

Variant	rs5006547
Chromosome Location	chr9:97391479-97391480
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97315886..97317442-chr9:97390408..97393191,2	MCF-7	breast:
2	chr9:97389746..97395320-chr9:97854192..97858136,7	MCF-7	breast:
3	chr9:97375392..97377044-chr9:97391362..97392909,2	MCF-7	breast:
4	chr9:97390244..97393079-chr9:97544131..97546613,2	MCF-7	breast:
5	chr9:97389422..97393205-chr9:97411609..97416128,4	MCF-7	breast:
6	chr9:97368983..97370788-chr9:97391157..97393414,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000231806	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10993274	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10993279	0.95[EUR][1000 genomes]
rs28369671	0.98[EUR][1000 genomes]
rs28745271	0.85[EUR][1000 genomes]
rs7847360	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1041195	chr9:97054795-97402378	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
3	nsv614918	chr9:97380597-97412037	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv893597	chr9:97380597-97463435	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs5006547	HIATL1	cis	lung	GTEx

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97371400-97401000	Weak transcription	Spleen	Spleen
2	chr9:97374600-97392600	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr9:97374600-97393400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr9:97381400-97400400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr9:97381600-97401000	Weak transcription	Right Atrium	heart
6	chr9:97382600-97392800	Weak transcription	Lung	lung
7	chr9:97382600-97393000	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr9:97382800-97399400	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr9:97385800-97392800	Weak transcription	Fetal Lung	lung
10	chr9:97387600-97393200	Weak transcription	Fetal Stomach	stomach
11	chr9:97388400-97392600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr9:97389800-97393400	Enhancers	Liver	Liver
13	chr9:97390000-97394200	Enhancers	Stomach Mucosa	stomach
14	chr9:97390000-97397600	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr9:97390200-97393200	Genic enhancers	Fetal Intestine Small	intestine
16	chr9:97390400-97391800	Weak transcription	Pancreas	Pancrea
17	chr9:97390400-97392600	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr9:97390600-97392600	Weak transcription	Colonic Mucosa	Colon
19	chr9:97390800-97392800	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr9:97391000-97391800	Weak transcription	Fetal Intestine Large	intestine
21	chr9:97391000-97391800	Weak transcription	Gastric	stomach
22	chr9:97391000-97392000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr9:97391000-97392400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr9:97391200-97391600	Weak transcription	Duodenum Mucosa	Duodenum

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