Variant report

Variant	rs3800507
Chromosome Location	chr6:15080047-15080048
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:15078226..15082089-chr6:15082411..15086924,5	K562	blood:
2	chr6:15070832..15073005-chr6:15078564..15081047,2	MCF-7	breast:
3	chr6:15079757..15081903-chr6:15244984..15246954,3	MCF-7	breast:
4	chr6:15079900..15085737-chr6:15087961..15092346,8	MCF-7	breast:
5	chr6:15065797..15068754-chr6:15078887..15080835,2	MCF-7	breast:
6	chr6:15076508..15078945-chr6:15079653..15081556,2	K562	blood:
7	chr6:15069299..15075541-chr6:15075577..15080851,9	K562	blood:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DTNBP1-5	chr6:15079865-15080062	XLOC_005618
2	lnc-DTNBP1-5	chr6:15079863-15080064	NONHSAT107859

No data

Variant related genes	Relation type
ENSG00000234261	Chromatin interaction
ENSG00000271888	Chromatin interaction
ENSG00000008083	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1114634	1.00[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12175033	1.00[CEU][hapmap];0.95[CHB][hapmap];0.83[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12212803	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12215015	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1884120	1.00[CEU][hapmap];0.95[CHB][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2092732	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2092733	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2421481	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3857639	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4712249	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4715963	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6459394	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6459398	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6910972	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6919665	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6927040	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6937383	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6941421	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7747995	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7755465	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs9367862	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9370792	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9370793	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9383016	1.00[CEU][hapmap];0.83[CHB][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9383019	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9396559	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9688891	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[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	nsv883454	chr6:15009137-15081252	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv830593	chr6:15049636-15244190	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15076200-15080200	Enhancers	HUES6 Cell Line	embryonic stem cell
2	chr6:15076400-15080600	Enhancers	H9 Cell Line	embryonic stem cell
3	chr6:15076600-15080200	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr6:15076600-15080200	Enhancers	H1 Cell Line	embryonic stem cell
5	chr6:15076600-15080200	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr6:15077000-15090000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr6:15077400-15080200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr6:15077600-15080200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr6:15078400-15080400	Enhancers	Fetal Intestine Small	intestine
10	chr6:15078400-15086600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr6:15078400-15086800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr6:15078600-15082600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr6:15078600-15083200	Enhancers	Fetal Intestine Large	intestine
14	chr6:15078600-15083800	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr6:15078800-15087400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr6:15079400-15080400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:15079600-15080200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
18	chr6:15079600-15080200	Enhancers	Duodenum Mucosa	Duodenum
19	chr6:15079600-15080400	Enhancers	Stomach Mucosa	stomach
20	chr6:15079800-15080200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr6:15079800-15080200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:15079800-15080200	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr6:15079800-15080200	Enhancers	Fetal Heart	heart
24	chr6:15079800-15080200	Transcr. at gene 5' and 3'	K562	blood
25	chr6:15079800-15080400	Enhancers	Right Atrium	heart
26	chr6:15080000-15080200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr6:15080000-15080200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr6:15080000-15080200	Enhancers	HepG2	liver
29	chr6:15080000-15081600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr6:15080000-15089400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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