Variant report

Variant	rs7981260
Chromosome Location	chr13:48506499-48506500
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SUCLA2-2	chr13:48504290-48506757	ENSG00000260388.1
2	lnc-SUCLA2-3	chr13:48506205-48506756	NONHSAT033689

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs12860399	0.85[EUR][1000 genomes]
rs12864691	0.81[EUR][1000 genomes]
rs12869557	0.91[ASN][1000 genomes]
rs12873785	0.96[ASN][1000 genomes]
rs1555722	0.94[ASN][1000 genomes]
rs17350996	1.00[CEU][hapmap]
rs17425881	1.00[CEU][hapmap];0.83[CHB][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes]
rs1974039	0.96[ASN][1000 genomes]
rs2104373	0.91[ASN][1000 genomes]
rs2104374	0.90[ASN][1000 genomes]
rs2296573	1.00[CEU][hapmap];0.94[CHB][hapmap];0.92[JPT][hapmap];0.93[YRI][hapmap];0.83[ASN][1000 genomes]
rs4553498	0.93[ASN][1000 genomes]
rs4942710	0.91[ASN][1000 genomes]
rs6561411	0.90[ASN][1000 genomes]
rs6561415	0.82[AFR][1000 genomes]
rs7317860	0.94[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs7318770	0.87[YRI][hapmap]
rs7323277	0.81[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7334095	0.91[ASN][1000 genomes]
rs7334463	0.94[CHB][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs7336952	0.90[ASN][1000 genomes]
rs7336972	0.84[AFR][1000 genomes]
rs7337766	0.90[ASN][1000 genomes]
rs7981114	1.00[CEU][hapmap];0.92[JPT][hapmap]
rs7986369	0.95[ASN][1000 genomes]
rs7989231	0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs7993360	0.93[ASN][1000 genomes]
rs7993810	0.95[ASN][1000 genomes]
rs7994427	0.96[ASN][1000 genomes]
rs7996580	0.86[YRI][hapmap]
rs7997802	0.93[YRI][hapmap]
rs7998116	0.83[YRI][hapmap]
rs7998886	0.94[ASN][1000 genomes]
rs9316346	1.00[CEU][hapmap];0.92[JPT][hapmap]
rs9316349	1.00[CEU][hapmap];0.92[JPT][hapmap]
rs9534905	0.83[YRI][hapmap]
rs9534906	0.83[YRI][hapmap]
rs9562779	0.96[ASN][1000 genomes]
rs9567940	0.93[ASN][1000 genomes]
rs9567943	0.96[ASN][1000 genomes]
rs9567948	0.94[ASN][1000 genomes]
rs9567958	0.93[YRI][hapmap]
rs9567980	0.80[YRI][hapmap]
rs9595813	0.81[AFR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933980	chr13:48431000-48557419	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	esv1803690	chr13:48470681-48508091	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:48492200-48510800	Weak transcription	Left Ventricle	heart
2	chr13:48495200-48506800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr13:48496600-48506600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr13:48501000-48531200	Weak transcription	Spleen	Spleen
5	chr13:48502000-48530800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr13:48502600-48507000	Weak transcription	Adipose Nuclei	Adipose
7	chr13:48502600-48513600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr13:48503600-48512400	Weak transcription	Aorta	Aorta
9	chr13:48503800-48507000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr13:48503800-48507400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr13:48503800-48513200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr13:48503800-48516800	Weak transcription	NHDF-Ad	bronchial
13	chr13:48504000-48513400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr13:48505600-48506600	Weak transcription	HepG2	liver
15	chr13:48506000-48531400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr13:48506400-48508200	Enhancers	Psoas Muscle	Psoas
17	chr13:48506400-48508800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr13:48506400-48508800	Enhancers	H9 Cell Line	embryonic stem cell
19	chr13:48506400-48509000	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr13:48506400-48509200	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr13:48506400-48509400	Enhancers	HUES6 Cell Line	embryonic stem cell

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