Variant report

Variant	rs12238876
Chromosome Location	chr9:97375715-97375716
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:97363454..97366255-chr9:97375188..97377706,2	K562	blood:
2	chr9:97375440..97378542-chr9:97391725..97394611,4	MCF-7	breast:
3	chr9:97375392..97377044-chr9:97391362..97392909,2	MCF-7	breast:
4	chr9:97373691..97376847-chr9:97393054..97396710,3	MCF-7	breast:
5	chr9:97375383..97375983-chr9:97889654..97890425,2	K562	blood:
6	chr9:97368431..97370242-chr9:97374099..97376854,2	MCF-7	breast:
7	chr9:97375061..97375860-chr9:97384899..97385874,3	MCF-7	breast:
8	chr9:97374523..97376034-chr9:97401091..97402787,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000158169	Chromatin interaction
ENSG00000165140	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1042144	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10821376	0.84[EUR][1000 genomes]
rs10993275	0.85[EUR][1000 genomes]
rs10993277	0.84[EUR][1000 genomes]
rs10993278	0.85[EUR][1000 genomes]
rs12000605	0.83[AFR][1000 genomes]
rs13284668	0.87[EUR][1000 genomes]
rs13291835	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13296485	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16937175	0.86[EUR][1000 genomes]
rs1754435	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1754439	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2296708	0.87[EUR][1000 genomes]
rs2679599	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2679600	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2772022	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2790390	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28369670	0.85[EUR][1000 genomes]
rs2987897	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2993905	0.86[EUR][1000 genomes]
rs2993912	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2993958	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2993959	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2993961	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2993962	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3896183	0.84[EUR][1000 genomes]
rs4075984	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4584201	0.83[AFR][1000 genomes]
rs4743961	0.87[EUR][1000 genomes]
rs4744362	0.87[EUR][1000 genomes]
rs515339	0.84[EUR][1000 genomes]
rs547834	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs548348	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs576745	0.89[EUR][1000 genomes]
rs583365	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs632506	0.87[EUR][1000 genomes]
rs67721291	0.88[EUR][1000 genomes]
rs802918	0.82[EUR][1000 genomes]
rs8192689	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs874248	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97364400-97382800	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr9:97364800-97382800	Strong transcription	Primary monocytes fromperipheralblood	blood
3	chr9:97365000-97376200	Genic enhancers	Liver	Liver
4	chr9:97366600-97384400	Weak transcription	Small Intestine	intestine
5	chr9:97370000-97382400	Weak transcription	Lung	lung
6	chr9:97371400-97401000	Weak transcription	Spleen	Spleen
7	chr9:97371600-97384200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr9:97372400-97384400	Weak transcription	Gastric	stomach
9	chr9:97373000-97381200	Weak transcription	Fetal Stomach	stomach
10	chr9:97373800-97375800	Enhancers	Pancreas	Pancrea
11	chr9:97374600-97380600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr9:97374600-97384400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr9:97374600-97392600	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr9:97374600-97393400	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr9:97374800-97381000	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr9:97374800-97384200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr9:97375200-97385600	Weak transcription	Stomach Mucosa	stomach
18	chr9:97375400-97379400	Weak transcription	HepG2	liver
19	chr9:97375400-97382800	Strong transcription	Duodenum Mucosa	Duodenum
20	chr9:97375400-97382800	Strong transcription	Fetal Intestine Large	intestine
21	chr9:97375400-97383000	Strong transcription	Fetal Intestine Small	intestine

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