Variant report

Variant	rs7774013
Chromosome Location	chr6:37513945-37513946
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AL353597.1-3	chr6:37513931-37514021	ENSG00000227920.2

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10947676	1.00[JPT][hapmap]
rs12201357	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12204908	0.82[JPT][hapmap]
rs12210274	1.00[JPT][hapmap]
rs12211948	1.00[JPT][hapmap]
rs16889902	1.00[JPT][hapmap];0.81[YRI][hapmap];0.86[ASN][1000 genomes]
rs17574830	1.00[JPT][hapmap]
rs2776882	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2797779	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2797780	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2797782	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3734319	1.00[JPT][hapmap]
rs62406767	0.85[EUR][1000 genomes];0.80[ASN][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	esv2752124	chr6:37416219-37680622	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	nsv1016310	chr6:37473075-37528469	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv462914	chr6:37502585-37517485	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv602954	chr6:37502585-37517485	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7774013	RP1-153P14.8	cis	Whole Blood	GTEx

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37493800-37514000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr6:37504200-37514000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr6:37504400-37514200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr6:37504400-37515200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr6:37504400-37529200	Weak transcription	Right Atrium	heart
6	chr6:37505200-37515400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr6:37505800-37515400	Weak transcription	Fetal Brain Female	brain
8	chr6:37507800-37520000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr6:37510400-37514200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr6:37510800-37533800	Enhancers	Primary B cells from peripheral blood	blood
11	chr6:37512600-37515200	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr6:37512600-37518000	Enhancers	Primary B cells from cord blood	blood
13	chr6:37512800-37514200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr6:37513200-37514200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr6:37513200-37514400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr6:37513400-37516000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:37513600-37514200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:37513600-37514400	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr6:37513600-37514400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:37513600-37514400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr6:37513600-37514400	Enhancers	HUES6 Cell Line	embryonic stem cell
22	chr6:37513600-37514600	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr6:37513600-37515400	Enhancers	GM12878-XiMat	blood
24	chr6:37513600-37515800	Enhancers	NHEK	skin
25	chr6:37513600-37516400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr6:37513600-37517400	Enhancers	Primary T cells fromperipheralblood	blood
27	chr6:37513800-37514000	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
28	chr6:37513800-37514000	Enhancers	Esophagus	oesophagus
29	chr6:37513800-37514200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:37513800-37514400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
31	chr6:37513800-37514400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:37513800-37514400	Enhancers	HUES48 Cell Line	embryonic stem cell
33	chr6:37513800-37514400	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr6:37513800-37514400	Enhancers	Placenta	Placenta
35	chr6:37513800-37514600	Enhancers	HUES64 Cell Line	embryonic stem cell
36	chr6:37513800-37515000	Weak transcription	Primary T helper cells fromperipheralblood	blood
37	chr6:37513800-37515600	Weak transcription	Right Ventricle	heart
38	chr6:37513800-37516600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr6:37513800-37517600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

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