Variant report

Variant	rs7874980
Chromosome Location	chr9:86324904-86324905
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:80644449..80646704-chr9:86322574..86325176,2	MCF-7	breast:
2	chr9:86322177..86324075-chr9:86324629..86327063,2	K562	blood:
3	chr17:79243975..79244954-chr9:86324608..86325328,2	NB4	blood:
4	chr9:86236280..86241962-chr9:86320992..86325340,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135018	Chromatin interaction
ENSG00000254473	Chromatin interaction
ENSG00000156052	Chromatin interaction
ENSG00000148057	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10115799	1.00[CHB][hapmap]
rs10119344	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10125432	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1035274	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1044175	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10746718	0.95[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10746719	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10746720	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10746721	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10780621	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10868040	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10868044	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10868045	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140198	0.85[CHB][hapmap]
rs11140209	0.84[CHB][hapmap]
rs11791175	0.85[CHB][hapmap]
rs1333863	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1333865	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1360685	0.89[ASN][1000 genomes]
rs1413293	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1537503	0.85[CHB][hapmap]
rs1572135	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1889260	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1968216	0.95[ASN][1000 genomes]
rs2042042	0.95[ASN][1000 genomes]
rs2058912	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2542775	0.89[ASN][1000 genomes]
rs2542776	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2542803	0.95[ASN][1000 genomes]
rs2780969	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2780972	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2780975	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2780979	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2780982	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2780995	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2780997	0.92[ASN][1000 genomes]
rs2780998	0.92[ASN][1000 genomes]
rs2780999	0.89[ASN][1000 genomes]
rs2781000	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs2781001	0.89[ASN][1000 genomes]
rs2781003	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2811899	0.83[EUR][1000 genomes]
rs2811900	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2811901	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2811902	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2811903	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2811905	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2811906	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2811909	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2811912	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2811919	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2811921	0.85[CHB][hapmap]
rs2811922	0.89[ASN][1000 genomes]
rs2811923	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2811924	0.87[ASN][1000 genomes]
rs2811925	0.89[ASN][1000 genomes]
rs2811926	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2811927	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2811928	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2811929	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2811930	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2811931	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs4146741	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4242623	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4454364	0.85[CHB][hapmap]
rs4877796	0.85[CHB][hapmap]
rs4877798	0.95[ASN][1000 genomes]
rs6559737	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6559739	0.91[ASN][1000 genomes]
rs7018643	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7023082	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7039019	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7850944	0.95[ASN][1000 genomes]
rs7865296	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs944946	0.95[ASN][1000 genomes]
rs961807	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[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	nsv1044639	chr9:86252505-86412041	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv893513	chr9:86298632-86433459	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 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	chr9:86323800-86325800	Weak transcription	Psoas Muscle	Psoas
2	chr9:86324200-86326000	Weak transcription	Primary B cells from cord blood	blood
3	chr9:86324200-86327600	Weak transcription	Brain Cingulate Gyrus	brain
4	chr9:86324200-86327600	Weak transcription	Brain Substantia Nigra	brain
5	chr9:86324200-86327800	Weak transcription	Brain Anterior Caudate	brain
6	chr9:86324200-86327800	Weak transcription	Brain Hippocampus Middle	brain
7	chr9:86324200-86328200	Weak transcription	Fetal Intestine Small	intestine
8	chr9:86324200-86328800	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr9:86324200-86328800	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr9:86324200-86329000	Weak transcription	Fetal Muscle Leg	muscle
11	chr9:86324200-86329200	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr9:86324200-86329200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr9:86324200-86330000	Weak transcription	Primary T cells from cord blood	blood
14	chr9:86324200-86330400	Weak transcription	HSMMtube	muscle
15	chr9:86324200-86331000	Weak transcription	Brain Angular Gyrus	brain
16	chr9:86324200-86331800	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr9:86324400-86327600	Weak transcription	Liver	Liver
18	chr9:86324400-86328000	Weak transcription	Fetal Kidney	kidney
19	chr9:86324400-86328400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr9:86324600-86328400	Weak transcription	Pancreas	Pancrea
21	chr9:86324600-86329000	Weak transcription	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links