Variant report

Variant	rs10749607
Chromosome Location	chr10:91099943-91099944
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:91098435..91101056-chr10:91103383..91106129,3	K562	blood:
2	chr10:91097289..91100504-chr10:91101597..91104556,3	K562	blood:

Variant related genes	Relation type
ENSG00000107798	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10159774	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10509570	1.00[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap]
rs10749605	0.92[CEU][hapmap];0.91[JPT][hapmap]
rs10749606	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10887943	0.92[JPT][hapmap];1.00[YRI][hapmap]
rs160052	1.00[YRI][hapmap]
rs1888923	0.89[CEU][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs215493	0.89[CEU][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs303172	0.84[CEU][hapmap]
rs303174	0.81[AMR][1000 genomes]
rs303217	0.96[CEU][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs304439	0.81[AMR][1000 genomes]
rs304440	0.89[CEU][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs304448	0.85[CEU][hapmap]
rs304449	0.89[CEU][hapmap];1.00[YRI][hapmap]
rs304478	0.96[CEU][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs304483	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs304485	0.89[CEU][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs304494	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs304495	0.96[CEU][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs304504	0.96[CEU][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs305371	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs305373	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs305375	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs305376	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs305377	1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4933504	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4934471	0.92[CEU][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4934473	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4934475	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs627524	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6586184	0.89[AMR][1000 genomes]
rs7094510	0.92[CEU][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes]
rs7095398	0.92[CEU][hapmap];0.91[JPT][hapmap]
rs954439	0.85[CEU][hapmap];0.84[AMR][1000 genomes]
rs975686	0.92[AMR][1000 genomes];0.85[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:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10749607	IFIT5	cis	Skin Sun Exposed Lower leg	GTEx
rs10749607	IFIT5	Cis_1M	lymphoblastoid	RTeQTL
rs10749607	IFIT5	cis	Artery Tibial	GTEx

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91090200-91107600	Weak transcription	Pancreas	Pancrea
2	chr10:91093400-91100200	Weak transcription	K562	blood
3	chr10:91093400-91100800	Weak transcription	Right Ventricle	heart
4	chr10:91093800-91106000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr10:91093800-91106400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr10:91094000-91101000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr10:91094000-91102000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr10:91094000-91102200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr10:91094000-91103400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr10:91094000-91105400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr10:91094000-91110200	Weak transcription	Colonic Mucosa	Colon
12	chr10:91094000-91112000	Weak transcription	Esophagus	oesophagus
13	chr10:91094200-91101400	Weak transcription	Osteobl	bone
14	chr10:91094200-91102000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr10:91094200-91102000	Weak transcription	NHDF-Ad	bronchial
16	chr10:91094200-91103400	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr10:91094200-91106800	Weak transcription	Fetal Kidney	kidney
18	chr10:91094200-91108400	Weak transcription	Stomach Mucosa	stomach
19	chr10:91094600-91100800	Weak transcription	Right Atrium	heart
20	chr10:91095200-91102000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr10:91095200-91110400	Weak transcription	Colon Smooth Muscle	Colon
22	chr10:91095600-91105600	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr10:91096200-91100400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr10:91096200-91100400	Weak transcription	Thymus	Thymus
25	chr10:91096200-91100800	Strong transcription	Fetal Muscle Leg	muscle
26	chr10:91096200-91101200	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr10:91096400-91100200	Strong transcription	Liver	Liver
28	chr10:91096600-91101200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr10:91096600-91101200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr10:91096600-91101200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr10:91096600-91101200	Strong transcription	Fetal Muscle Trunk	muscle
32	chr10:91096600-91101400	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr10:91096800-91100200	Strong transcription	Fetal Stomach	stomach
34	chr10:91097200-91101200	Strong transcription	Primary neutrophils fromperipheralblood	blood
35	chr10:91097400-91100000	Strong transcription	Primary B cells from cord blood	blood
36	chr10:91097400-91100000	Genic enhancers	Brain Dorsolateral Prefrontal Cortex	brain
37	chr10:91097400-91100000	Strong transcription	NHLF	lung
38	chr10:91097400-91100600	Strong transcription	Cortex derived primary cultured neurospheres	brain
39	chr10:91097400-91100800	Strong transcription	Fetal Lung	lung
40	chr10:91097400-91101200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr10:91097400-91101200	Strong transcription	Ovary	ovary
42	chr10:91097400-91105600	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr10:91097600-91100000	Strong transcription	Spleen	Spleen
44	chr10:91097600-91101000	Strong transcription	Lung	lung
45	chr10:91097600-91101800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
46	chr10:91097600-91102000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr10:91097600-91102000	Weak transcription	NH-A	brain
48	chr10:91097600-91102200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr10:91097600-91102800	Strong transcription	GM12878-XiMat	blood
50	chr10:91097600-91106200	Weak transcription	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links