Variant report

Variant	rs11203072
Chromosome Location	chr10:91094538-91094539
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:91093291..91095702-chr10:91097071..91099553,2	MCF-7	breast:
2	chr10:91094086..91096049-chr10:91100539..91102838,2	MCF-7	breast:
3	chr10:91092012..91093700-chr10:91094311..91097149,2	K562	blood:

Variant related genes	Relation type
ENSG00000107798	Chromatin interaction
ENSG00000119917	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10509571	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10509572	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10788642	0.84[ASN][1000 genomes]
rs10887950	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10887953	0.85[ASN][1000 genomes]
rs10887957	0.83[ASN][1000 genomes]
rs11203063	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11203066	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11203070	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11203090	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11203099	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11203105	0.85[ASN][1000 genomes]
rs11203106	0.84[ASN][1000 genomes]
rs11203115	0.84[ASN][1000 genomes]
rs11819073	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12248331	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12255504	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12356008	0.82[ASN][1000 genomes]
rs12766862	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12772449	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12781453	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1332330	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1591051	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17096301	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17120001	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17120004	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2070845	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2274878	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34032344	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34234196	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34712773	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35830608	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3740027	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3780878	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4339948	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs59564102	0.87[ASN][1000 genomes]
rs6586182	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6586183	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7073534	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7085361	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7088579	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs71479013	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7897619	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7897873	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7910389	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7916812	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs884407	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9733018	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
4	nsv1040375	chr10:91022218-91153074	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	esv34085	chr10:91065949-91174175	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11203072	IFIT5	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91088000-91099800	Weak transcription	Gastric	stomach
2	chr10:91090200-91107600	Weak transcription	Pancreas	Pancrea
3	chr10:91092600-91095000	Enhancers	Dnd41	blood
4	chr10:91092600-91095600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr10:91092800-91095000	Enhancers	Primary B cells from peripheral blood	blood
6	chr10:91092800-91095000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr10:91092800-91095200	Enhancers	Spleen	Spleen
8	chr10:91092800-91095400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr10:91092800-91095400	Enhancers	Small Intestine	intestine
10	chr10:91092800-91095600	Enhancers	Primary T killer memory cells from peripheral blood	blood
11	chr10:91093000-91094800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr10:91093000-91095200	Enhancers	Primary T cells fromperipheralblood	blood
13	chr10:91093000-91095200	Enhancers	Skeletal Muscle Male	skeletal muscle
14	chr10:91093200-91094600	Enhancers	Ovary	ovary
15	chr10:91093200-91095600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
16	chr10:91093400-91095600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr10:91093400-91097200	Enhancers	Brain Substantia Nigra	brain
18	chr10:91093400-91097800	Enhancers	Primary T helper cells PMA-I stimulated	--
19	chr10:91093400-91100200	Weak transcription	K562	blood
20	chr10:91093400-91100800	Weak transcription	Right Ventricle	heart
21	chr10:91093600-91096600	Weak transcription	Fetal Muscle Trunk	muscle
22	chr10:91093800-91094800	Active TSS	GM12878-XiMat	blood
23	chr10:91093800-91095400	Enhancers	Primary monocytes fromperipheralblood	blood
24	chr10:91093800-91097200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr10:91093800-91097400	Weak transcription	Primary hematopoietic stem cells	blood
26	chr10:91093800-91099000	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr10:91093800-91106000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr10:91093800-91106400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr10:91094000-91094800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr10:91094000-91095000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr10:91094000-91095000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr10:91094000-91095000	Weak transcription	Colon Smooth Muscle	Colon
33	chr10:91094000-91095200	Weak transcription	Fetal Heart	heart
34	chr10:91094000-91095400	Enhancers	Primary neutrophils fromperipheralblood	blood
35	chr10:91094000-91095400	Enhancers	Fetal Intestine Small	intestine
36	chr10:91094000-91095600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr10:91094000-91095800	Enhancers	Brain Inferior Temporal Lobe	brain
38	chr10:91094000-91095800	Enhancers	Fetal Intestine Large	intestine
39	chr10:91094000-91096200	Weak transcription	Hela-S3	cervix
40	chr10:91094000-91097200	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr10:91094000-91097200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr10:91094000-91097200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr10:91094000-91097200	Enhancers	Brain Anterior Caudate	brain
44	chr10:91094000-91097200	Weak transcription	NH-A	brain
45	chr10:91094000-91097400	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr10:91094000-91097400	Weak transcription	NHLF	lung
47	chr10:91094000-91098000	Weak transcription	HSMMtube	muscle
48	chr10:91094000-91098200	Weak transcription	HSMM	muscle
49	chr10:91094000-91098400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr10:91094000-91101000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links