Variant report

Variant	rs884407
Chromosome Location	chr10:91128832-91128833
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:91127690..91129371-chr10:91173548..91175886,2	MCF-7	breast:
2	chr10:91019777..91020866-chr10:91128531..91129985,10	MCF-7	breast:
3	chr10:91019711..91020808-chr10:91128397..91129939,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000107798	Chromatin interaction
ENSG00000152778	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10509571	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10509572	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10788642	0.84[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs10887950	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10887953	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10887957	0.89[ASN][1000 genomes]
rs10887959	0.81[ASN][1000 genomes]
rs11203063	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11203066	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11203070	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11203072	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11203090	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11203099	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11203105	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11203106	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11203109	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11203112	0.81[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs11203115	0.90[ASN][1000 genomes]
rs11819073	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12248331	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12255504	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12356008	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12766862	0.81[EUR][1000 genomes]
rs12772449	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12781453	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12781505	0.82[ASN][1000 genomes]
rs1332330	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1591051	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17096301	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17120001	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17120004	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17121248	0.81[ASN][1000 genomes]
rs2070845	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2274878	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34032344	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34234196	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34712773	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35830608	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35833529	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs3740027	0.84[AMR][1000 genomes]
rs3780878	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4339948	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4630205	0.81[EUR][1000 genomes]
rs59564102	0.80[ASN][1000 genomes]
rs6586182	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6586183	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7073534	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7085361	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7088579	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7097569	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs71479013	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7897619	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7897873	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7910389	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7916812	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9733018	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][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
rs884407	IFIT5	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91119600-91133800	Weak transcription	Pancreas	Pancrea
2	chr10:91124000-91129000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr10:91124000-91129000	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr10:91124000-91130400	Weak transcription	K562	blood
5	chr10:91127000-91129000	Enhancers	Brain Substantia Nigra	brain
6	chr10:91127000-91129400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr10:91127000-91129600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr10:91127000-91130000	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr10:91127000-91130200	Enhancers	Liver	Liver
10	chr10:91127200-91129200	Enhancers	Placenta Amnion	Placenta Amnion
11	chr10:91127200-91129400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr10:91127200-91129400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr10:91127200-91129400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr10:91127200-91129400	Enhancers	Adipose Nuclei	Adipose
15	chr10:91127200-91129400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr10:91127200-91129400	Enhancers	Fetal Lung	lung
17	chr10:91127200-91129600	Enhancers	Osteobl	bone
18	chr10:91127200-91129800	Enhancers	Brain Cingulate Gyrus	brain
19	chr10:91127200-91129800	Enhancers	Brain Inferior Temporal Lobe	brain
20	chr10:91127200-91129800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
21	chr10:91127200-91129800	Enhancers	Fetal Intestine Small	intestine
22	chr10:91127400-91129400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
23	chr10:91127400-91129400	Enhancers	NHDF-Ad	bronchial
24	chr10:91127400-91129800	Enhancers	Placenta	Placenta
25	chr10:91127400-91130000	Enhancers	Fetal Muscle Leg	muscle
26	chr10:91127600-91129200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr10:91127600-91129200	Enhancers	Aorta	Aorta
28	chr10:91127600-91129400	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr10:91127600-91129400	Enhancers	Fetal Stomach	stomach
30	chr10:91127600-91129800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr10:91127800-91129000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr10:91127800-91129000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr10:91127800-91129000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr10:91127800-91129000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr10:91127800-91129000	Weak transcription	Fetal Intestine Large	intestine
36	chr10:91127800-91129200	Weak transcription	Fetal Brain Male	brain
37	chr10:91127800-91129800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr10:91127800-91133400	Weak transcription	Fetal Kidney	kidney
39	chr10:91127800-91134200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr10:91128000-91129400	Enhancers	HSMM	muscle
41	chr10:91128200-91129200	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr10:91128200-91129400	Enhancers	Primary hematopoietic stem cells short term culture	blood
43	chr10:91128200-91129400	Enhancers	GM12878-XiMat	blood
44	chr10:91128200-91133200	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr10:91128200-91133800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr10:91128200-91133800	Weak transcription	Small Intestine	intestine
47	chr10:91128400-91129200	Enhancers	Right Atrium	heart
48	chr10:91128400-91129400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr10:91128400-91129400	Enhancers	Left Ventricle	heart
50	chr10:91128400-91129400	Enhancers	Skeletal Muscle Female	skeletal muscle

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