Variant report

Variant	rs3796504
Chromosome Location	chr1:160580549-160580550
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLAMF1-1	chr1:160579609-160580588	NR_104400

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs12058421	1.00[ASN][1000 genomes]
rs34338384	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34378534	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs66847543	1.00[AFR][1000 genomes]
rs71628184	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1829614	chr1:160465291-160595000	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv872491	chr1:160470258-160580549	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv831703	chr1:160496124-160643024	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	esv1822379	chr1:160545332-160831143	Enhancers Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160575600-160584000	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
2	chr1:160576200-160591400	Weak transcription	Spleen	Spleen
3	chr1:160576400-160584800	Genic enhancers	Fetal Thymus	thymus
4	chr1:160576800-160591400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr1:160577000-160580800	Weak transcription	Fetal Intestine Small	intestine
6	chr1:160577000-160581000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
7	chr1:160577000-160584200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr1:160577000-160590800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr1:160577200-160584400	Genic enhancers	Thymus	Thymus
10	chr1:160577400-160584200	Strong transcription	Primary T cells from cord blood	blood
11	chr1:160577600-160580600	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr1:160577600-160584400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr1:160577800-160583200	Strong transcription	Primary T helper naive cells from peripheral blood	blood
14	chr1:160578000-160587400	Strong transcription	Primary B cells from peripheral blood	blood
15	chr1:160578200-160582800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr1:160578400-160581200	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
17	chr1:160579000-160584000	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr1:160579000-160589400	Strong transcription	GM12878-XiMat	blood
19	chr1:160579200-160580600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr1:160579200-160581200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr1:160579600-160583200	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr1:160579800-160583200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr1:160579800-160593200	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr1:160580000-160580800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr1:160580000-160581000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr1:160580000-160582800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr1:160580200-160580800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr1:160580200-160580800	Enhancers	Dnd41	blood
29	chr1:160580200-160581000	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr1:160580200-160581200	Enhancers	Fetal Intestine Large	intestine
31	chr1:160580200-160583400	Strong transcription	Primary B cells from cord blood	blood
32	chr1:160580400-160580800	Enhancers	H9 Cell Line	embryonic stem cell
33	chr1:160580400-160581400	Enhancers	Duodenum Mucosa	Duodenum

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