Variant report

Variant	rs34975423
Chromosome Location	chr6:15079924-15079925
allele	C/T
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:8)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 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	chr6:15078912..15079938-chr6:15221828..15222426,3	MCF-7	breast:
6	chr6:15065797..15068754-chr6:15078887..15080835,2	MCF-7	breast:
7	chr6:15076508..15078945-chr6:15079653..15081556,2	K562	blood:
8	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
ENSG00000008083	Chromatin interaction
ENSG00000271888	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs12523847	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs12526581	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12527338	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs13208436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34002727	0.84[AMR][1000 genomes]
rs34020582	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34916409	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35107556	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35592284	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35653219	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35724957	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs35734059	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4715961	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs4715962	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs55999893	0.83[EUR][1000 genomes]
rs56017242	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56065492	0.84[AMR][1000 genomes]
rs6459389	0.83[EUR][1000 genomes]
rs6459390	0.83[EUR][1000 genomes]
rs6459391	0.83[EUR][1000 genomes]
rs66584091	0.83[EUR][1000 genomes]
rs66681462	0.83[EUR][1000 genomes]
rs6908351	0.83[EUR][1000 genomes]
rs6908624	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6912122	0.83[EUR][1000 genomes]
rs6912486	0.83[EUR][1000 genomes]
rs6916449	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs6935097	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6937953	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6939427	0.83[EUR][1000 genomes]
rs71551017	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs71551018	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs7750902	0.83[EUR][1000 genomes]
rs7751222	0.83[EUR][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:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15074800-15080000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:15076200-15080200	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr6:15076400-15080600	Enhancers	H9 Cell Line	embryonic stem cell
4	chr6:15076600-15080200	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr6:15076600-15080200	Enhancers	H1 Cell Line	embryonic stem cell
6	chr6:15076600-15080200	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr6:15077000-15090000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:15077400-15080200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr6:15077600-15080200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr6:15078400-15080400	Enhancers	Fetal Intestine Small	intestine
11	chr6:15078400-15086600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr6:15078400-15086800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr6:15078600-15082600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr6:15078600-15083200	Enhancers	Fetal Intestine Large	intestine
15	chr6:15078600-15083800	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr6:15078800-15087400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr6:15079400-15080000	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr6:15079400-15080000	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr6:15079400-15080000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr6:15079400-15080400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr6:15079600-15080000	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr6:15079600-15080000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:15079600-15080000	Flanking Active TSS	HepG2	liver
24	chr6:15079600-15080200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
25	chr6:15079600-15080200	Enhancers	Duodenum Mucosa	Duodenum
26	chr6:15079600-15080400	Enhancers	Stomach Mucosa	stomach
27	chr6:15079800-15080000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr6:15079800-15080000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr6:15079800-15080200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr6:15079800-15080200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr6:15079800-15080200	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr6:15079800-15080200	Enhancers	Fetal Heart	heart
33	chr6:15079800-15080200	Transcr. at gene 5' and 3'	K562	blood
34	chr6:15079800-15080400	Enhancers	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links