Variant report

Variant	rs1333033
Chromosome Location	chr9:22045653-22045654
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MTAP-1	chr9:22045457-22046899	NONHSAT130430

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1412831	0.91[AMR][1000 genomes]
rs1591137	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3217979	0.81[AMR][1000 genomes]
rs57222759	0.81[AMR][1000 genomes]
rs58814679	0.91[AMR][1000 genomes]
rs60490000	0.81[AMR][1000 genomes]
rs6475603	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7048912	0.91[AMR][1000 genomes]
rs73444375	0.81[AMR][1000 genomes]
rs73444381	0.81[AMR][1000 genomes]
rs73446312	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73446314	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73649993	1.00[EUR][1000 genomes]
rs73650043	1.00[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	nsv529609	chr9:21708371-22537069	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv8426	chr9:21763810-22176200	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv1018514	chr9:21944275-22075326	Active TSS Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv892747	chr9:21984661-22068646	Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv531617	chr9:21985057-22809676	Genic enhancers Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:22040200-22046000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr9:22041000-22046400	Weak transcription	Duodenum Mucosa	Duodenum
3	chr9:22042000-22048000	Weak transcription	Adipose Nuclei	Adipose
4	chr9:22042200-22046600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr9:22042400-22049200	Weak transcription	Hela-S3	cervix
6	chr9:22042600-22049200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr9:22042600-22052600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr9:22042800-22046000	Weak transcription	Fetal Intestine Small	intestine
9	chr9:22042800-22046200	Weak transcription	Fetal Intestine Large	intestine
10	chr9:22042800-22049400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr9:22042800-22052600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr9:22043800-22045800	Enhancers	NH-A	brain
13	chr9:22044000-22045800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr9:22044000-22045800	Enhancers	Dnd41	blood
15	chr9:22044000-22046000	Enhancers	HUVEC	blood vessel
16	chr9:22044000-22046200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:22044200-22046000	Enhancers	HSMM	muscle
18	chr9:22044600-22049200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr9:22045000-22049200	Weak transcription	NHDF-Ad	bronchial
20	chr9:22045200-22049200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr9:22045200-22049200	Weak transcription	Osteobl	bone
22	chr9:22045200-22049600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr9:22045400-22046200	Enhancers	Primary T cells from cord blood	blood
24	chr9:22045400-22047200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
25	chr9:22045400-22047200	Enhancers	Primary T helper cells PMA-I stimulated	--
26	chr9:22045400-22047200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
27	chr9:22045600-22046400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr9:22045600-22046400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr9:22045600-22046600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr9:22045600-22047200	Enhancers	Primary T helper cells fromperipheralblood	blood
31	chr9:22045600-22049400	Weak transcription	HMEC	breast
32	chr9:22045600-22050200	Weak transcription	NHEK	skin
33	chr9:22045600-22050400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr9:22045600-22050400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr9:22045600-22051800	Weak transcription	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links