Variant report

Variant	rs10887957
Chromosome Location	chr10:91175968-91175969
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:91009631..91012227-chr10:91174311..91176643,2	MCF-7	breast:
2	chr10:91157615..91160495-chr10:91173578..91176122,3	MCF-7	breast:
3	chr10:91174610..91176445-chr10:91403039..91405498,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000232936	Chromatin interaction
ENSG00000185745	Chromatin interaction
ENSG00000107798	Chromatin interaction
ENSG00000152782	Chromatin interaction
ENSG00000249962	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10509572	0.87[ASN][1000 genomes]
rs10788642	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10887950	0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10887953	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10887959	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11203072	0.83[ASN][1000 genomes]
rs11203090	0.87[ASN][1000 genomes]
rs11203099	0.82[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs11203105	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11203106	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11203109	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11203112	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11203115	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11203119	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11819073	0.90[ASN][1000 genomes]
rs12248331	0.83[ASN][1000 genomes]
rs12255504	0.83[ASN][1000 genomes]
rs12356008	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12781453	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12781505	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1591051	0.89[ASN][1000 genomes]
rs17120001	0.87[ASN][1000 genomes]
rs17120004	0.87[ASN][1000 genomes]
rs17121248	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34234196	0.87[ASN][1000 genomes]
rs34712773	0.81[ASN][1000 genomes]
rs35359667	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35830608	0.87[ASN][1000 genomes]
rs3780878	0.83[ASN][1000 genomes]
rs6586182	0.81[ASN][1000 genomes]
rs6586183	0.81[ASN][1000 genomes]
rs7073534	0.81[ASN][1000 genomes]
rs7085361	0.81[ASN][1000 genomes]
rs7088579	0.81[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7090346	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs71479013	0.87[ASN][1000 genomes]
rs7897619	0.81[ASN][1000 genomes]
rs7897873	0.81[ASN][1000 genomes]
rs7910389	0.81[ASN][1000 genomes]
rs7916812	0.83[ASN][1000 genomes]
rs884407	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv1041964	chr10:90861380-91378356	Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10887957	IFIT5	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91173600-91176000	Active TSS	GM12878-XiMat	blood
2	chr10:91173600-91176200	Active TSS	Right Atrium	heart
3	chr10:91173600-91176200	Active TSS	HSMM	muscle
4	chr10:91173800-91176200	Active TSS	Duodenum Smooth Muscle	Duodenum
5	chr10:91174000-91176000	Active TSS	Brain Anterior Caudate	brain
6	chr10:91174000-91176000	Active TSS	Brain Cingulate Gyrus	brain
7	chr10:91174000-91176200	Active TSS	Stomach Smooth Muscle	stomach
8	chr10:91174600-91177000	Weak transcription	K562	blood
9	chr10:91175000-91176000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
10	chr10:91175000-91176200	Flanking Active TSS	Dnd41	blood
11	chr10:91175200-91176000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr10:91175200-91176000	Flanking Active TSS	Fetal Muscle Leg	muscle
13	chr10:91175200-91176200	Flanking Active TSS	Duodenum Mucosa	Duodenum
14	chr10:91175200-91176400	Flanking Active TSS	Brain Germinal Matrix	brain
15	chr10:91175200-91176400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
16	chr10:91175400-91176000	Enhancers	Primary hematopoietic stem cells	blood
17	chr10:91175400-91176000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
18	chr10:91175400-91176000	Enhancers	Fetal Muscle Trunk	muscle
19	chr10:91175400-91176000	Weak transcription	Small Intestine	intestine
20	chr10:91175400-91176200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr10:91175400-91176200	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
22	chr10:91175400-91176200	Flanking Active TSS	Liver	Liver
23	chr10:91175400-91176600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
24	chr10:91175400-91176800	Enhancers	Sigmoid Colon	Sigmoid Colon
25	chr10:91175400-91177800	Enhancers	Pancreas	Pancrea
26	chr10:91175400-91178800	Weak transcription	Gastric	stomach
27	chr10:91175400-91180200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr10:91175400-91187600	Weak transcription	HUVEC	blood vessel
29	chr10:91175600-91176000	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
30	chr10:91175600-91176000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr10:91175600-91176000	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr10:91175600-91176000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr10:91175600-91176000	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
34	chr10:91175600-91176000	Enhancers	Colonic Mucosa	Colon
35	chr10:91175600-91176000	Flanking Active TSS	Colon Smooth Muscle	Colon
36	chr10:91175600-91176000	Active TSS	Rectal Mucosa Donor 31	rectum
37	chr10:91175600-91176200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr10:91175600-91176200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr10:91175600-91176200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
40	chr10:91175600-91176200	Enhancers	Fetal Brain Male	brain
41	chr10:91175600-91176200	Enhancers	Fetal Heart	heart
42	chr10:91175600-91176200	Enhancers	Fetal Intestine Large	intestine
43	chr10:91175600-91176200	Enhancers	Placenta	Placenta
44	chr10:91175600-91176200	Genic enhancers	Fetal Stomach	stomach
45	chr10:91175600-91176200	Flanking Active TSS	Lung	lung
46	chr10:91175600-91176200	Enhancers	Skeletal Muscle Female	skeletal muscle
47	chr10:91175600-91176400	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
48	chr10:91175600-91176400	Enhancers	Primary T killer memory cells from peripheral blood	blood
49	chr10:91175600-91176400	Enhancers	Adipose Nuclei	Adipose
50	chr10:91175600-91176400	Enhancers	Rectal Smooth Muscle	rectum

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