Variant report

Variant	rs2899119
Chromosome Location	chr15:44848888-44848889
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:44848760-44849066	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:44847812..44849395-chr15:44853158..44855099,2	K562	blood:
2	chr15:44828830..44831440-chr15:44847499..44850264,2	MCF-7	breast:

Variant related genes	Relation type
EIF3J	TF binding region
ENSG00000259659	TF binding region
ENSG00000104131	Chromatin interaction
ENSG00000179523	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10467977	0.81[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs2288342	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2412883	0.84[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs2412909	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2555353	0.87[AFR][1000 genomes]
rs2556562	0.86[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2556566	0.81[AFR][1000 genomes]
rs2556567	0.85[AFR][1000 genomes]
rs28561508	0.85[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs3986142	0.85[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs3986143	0.82[ASN][1000 genomes]
rs4415978	0.83[AFR][1000 genomes]
rs59230801	0.80[AFR][1000 genomes]
rs60003667	0.81[AFR][1000 genomes]
rs60399672	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs61234123	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs61258861	0.82[ASN][1000 genomes]
rs7163287	0.95[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7166278	0.86[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs7166945	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7167870	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7170248	0.83[AFR][1000 genomes]
rs7178318	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs8025876	0.84[AFR][1000 genomes]
rs8026945	0.81[AFR][1000 genomes]
rs8027036	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs883943	0.82[ASN][1000 genomes]
rs9673085	0.82[AFR][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	nsv431387	chr15:43929378-44862930	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	158 gene(s)	inside rSNPs	diseases
2	esv3386433	chr15:44654644-45037538	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	135 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:44830400-44850200	Weak transcription	Aorta	Aorta
2	chr15:44830400-44855200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr15:44830400-44855200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:44831000-44856800	Weak transcription	Fetal Brain Male	brain
5	chr15:44833800-44857200	Weak transcription	Small Intestine	intestine
6	chr15:44838400-44857200	Weak transcription	Stomach Mucosa	stomach
7	chr15:44838800-44849400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr15:44840000-44856000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr15:44840200-44858000	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr15:44840600-44855600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr15:44840600-44857000	Strong transcription	Hela-S3	cervix
12	chr15:44842000-44951600	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr15:44842400-44856600	Strong transcription	HUES6 Cell Line	embryonic stem cell
14	chr15:44842400-44857400	Weak transcription	Right Atrium	heart
15	chr15:44842800-44855800	Strong transcription	HUES64 Cell Line	embryonic stem cell
16	chr15:44842800-44856400	Strong transcription	HUES48 Cell Line	embryonic stem cell
17	chr15:44842800-44857000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr15:44843000-44856600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
19	chr15:44843000-44857200	Strong transcription	NH-A	brain
20	chr15:44843200-44850000	Strong transcription	NHEK	skin
21	chr15:44843200-44855200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr15:44843200-44856200	Strong transcription	H1 Cell Line	embryonic stem cell
23	chr15:44843200-44857000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr15:44843200-44857000	Strong transcription	Dnd41	blood
25	chr15:44843200-44857400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr15:44843200-44857400	Strong transcription	Liver	Liver
27	chr15:44843200-44857400	Strong transcription	Fetal Intestine Large	intestine
28	chr15:44843200-44857600	Strong transcription	Adipose Nuclei	Adipose
29	chr15:44843200-44867800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr15:44843200-44868000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr15:44843400-44856400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
32	chr15:44843400-44856600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
33	chr15:44843400-44856800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr15:44843600-44856200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr15:44843600-44866000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr15:44843800-44853800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr15:44843800-44857000	Strong transcription	Primary B cells from cord blood	blood
38	chr15:44843800-44857000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
39	chr15:44843800-44857000	Strong transcription	Cortex derived primary cultured neurospheres	brain
40	chr15:44843800-44857200	Strong transcription	Duodenum Mucosa	Duodenum
41	chr15:44843800-44857400	Strong transcription	Primary B cells from peripheral blood	blood
42	chr15:44843800-44867600	Strong transcription	Rectal Mucosa Donor 29	rectum
43	chr15:44844000-44851400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr15:44844000-44852600	Strong transcription	Fetal Intestine Small	intestine
45	chr15:44844000-44852600	Strong transcription	Fetal Stomach	stomach
46	chr15:44844000-44853800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr15:44844000-44853800	Strong transcription	Left Ventricle	heart
48	chr15:44844000-44857200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr15:44844000-44857200	Strong transcription	Fetal Muscle Leg	muscle
50	chr15:44844000-44866400	Strong transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links