Variant report

Variant	rs28603237
Chromosome Location	chr4:56996894-56996895
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:56990498..56992393-chr4:56995607..56997336,2	K562	blood:
2	chr4:56996872..56999249-chr4:57000156..57002361,2	K562	blood:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10008254	0.83[AMR][1000 genomes]
rs10030394	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11723545	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11731420	0.94[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs11736354	0.96[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2127198	0.80[ASN][1000 genomes]
rs28392731	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28407980	0.82[ASN][1000 genomes]
rs28418386	0.96[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs28421026	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28433043	0.93[ASN][1000 genomes]
rs28463663	0.82[ASN][1000 genomes]
rs41335053	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6554333	0.82[ASN][1000 genomes]
rs7686487	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2755990	chr4:56317136-57143037	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv999328	chr4:56942917-57041586	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1007114	chr4:56942917-57055381	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv999639	chr4:56942917-57401310	Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv1014045	chr4:56942917-57404511	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
6	nsv1012036	chr4:56963544-57106642	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:56952000-57024400	Weak transcription	Fetal Intestine Small	intestine
2	chr4:56993000-57000400	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr4:56993200-56997800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr4:56993800-56997400	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr4:56993800-56997800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr4:56994000-57000400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr4:56994200-57000400	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr4:56994200-57000400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr4:56994400-56999800	Weak transcription	Hela-S3	cervix
10	chr4:56994400-57000000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr4:56994400-57000200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr4:56994400-57000400	Weak transcription	NH-A	brain
13	chr4:56994400-57003000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:56994400-57015200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr4:56994600-56997000	Weak transcription	Fetal Kidney	kidney
16	chr4:56994600-57001600	Weak transcription	Fetal Brain Female	brain
17	chr4:56994800-57000000	Weak transcription	HSMM	muscle
18	chr4:56994800-57000200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr4:56994800-57000200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr4:56995000-57000200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr4:56995000-57000400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr4:56995400-56997200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr4:56995600-56999600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr4:56996000-57000400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr4:56996000-57004000	Weak transcription	Fetal Brain Male	brain
26	chr4:56996000-57015400	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr4:56996200-56998600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr4:56996200-57000200	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr4:56996200-57000200	Weak transcription	Fetal Stomach	stomach
30	chr4:56996200-57000200	Weak transcription	HepG2	liver
31	chr4:56996400-56997200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr4:56996600-56997800	Enhancers	HUVEC	blood vessel
33	chr4:56996800-56997400	Enhancers	Fetal Lung	lung
34	chr4:56996800-56997600	Enhancers	Muscle Satellite Cultured Cells	--
35	chr4:56996800-56998000	Enhancers	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links