Variant report

Variant	rs1340044
Chromosome Location	chr9:18362105-18362106
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM154A-2	chr9:18362081-18362218	XLOC_007653

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10511652	0.88[CHB][hapmap];0.85[ASN][1000 genomes]
rs10756959	0.82[ASN][1000 genomes]
rs10810958	0.90[ASN][1000 genomes]
rs12338293	0.85[ASN][1000 genomes]
rs12341057	0.85[ASN][1000 genomes]
rs12350298	0.85[ASN][1000 genomes]
rs2791442	0.91[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs4961642	0.85[ASN][1000 genomes]
rs7020284	0.91[CHB][hapmap];0.83[ASN][1000 genomes]
rs7024252	0.88[CHB][hapmap];0.83[ASN][1000 genomes]
rs7028032	0.98[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7031026	0.90[ASN][1000 genomes]
rs7047314	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7861774	0.94[ASN][1000 genomes]
rs9407897	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831522	chr9:18231982-18459492	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv491807	chr9:18243672-19009770	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	esv2764161	chr9:18247433-18443060	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv892684	chr9:18261485-18401585	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv525659	chr9:18288212-19009041	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv1019127	chr9:18288271-18996288	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv892687	chr9:18303691-18430297	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	esv1831194	chr9:18355044-18369216	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:18333400-18368200	Weak transcription	Aorta	Aorta
2	chr9:18356400-18363200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:18357400-18364200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr9:18358000-18364200	Enhancers	NHDF-Ad	bronchial
5	chr9:18358000-18364400	Enhancers	Osteobl	bone
6	chr9:18358800-18362600	Weak transcription	Primary B cells from cord blood	blood
7	chr9:18359800-18363000	Weak transcription	HSMMtube	muscle
8	chr9:18360000-18364000	Enhancers	Fetal Lung	lung
9	chr9:18360400-18363000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr9:18360600-18362400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr9:18360600-18362800	Weak transcription	NH-A	brain
12	chr9:18360600-18363200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr9:18360600-18363200	Weak transcription	Psoas Muscle	Psoas
14	chr9:18361000-18362800	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr9:18361000-18363000	Weak transcription	NHLF	lung
16	chr9:18361200-18363000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr9:18361400-18362200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr9:18361600-18362200	Enhancers	Right Ventricle	heart
19	chr9:18361600-18364200	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr9:18361600-18368400	Weak transcription	HUVEC	blood vessel
21	chr9:18361800-18362200	Enhancers	Fetal Kidney	kidney
22	chr9:18361800-18362400	Weak transcription	Fetal Stomach	stomach
23	chr9:18361800-18362600	Enhancers	Brain Hippocampus Middle	brain
24	chr9:18362000-18362200	Flanking Active TSS	Fetal Heart	heart
25	chr9:18362000-18362400	Weak transcription	Colon Smooth Muscle	Colon
26	chr9:18362000-18362400	Weak transcription	HSMM	muscle
27	chr9:18362000-18363000	Weak transcription	Stomach Smooth Muscle	stomach
28	chr9:18362000-18363200	Weak transcription	Left Ventricle	heart

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