Variant report

Variant	rs7604487
Chromosome Location	chr2:64595522-64595523
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:64595365..64597527-chr2:64680554..64682467,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000223935	Chromatin interaction
ENSG00000119862	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs6546069	0.80[CHD][hapmap];0.92[JPT][hapmap];0.84[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	nsv1013132	chr2:64235175-64631084	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1006553	chr2:64339907-64764771	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv834244	chr2:64480943-64646259	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
4	nsv874238	chr2:64575738-64614241	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7604487	SERTAD2	cis	cerebellum	SCAN

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:64591200-64599000	Weak transcription	Esophagus	oesophagus
2	chr2:64591400-64598400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr2:64591600-64595800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr2:64591800-64595600	Weak transcription	NHEK	skin
5	chr2:64591800-64595800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr2:64591800-64602600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr2:64591800-64602600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr2:64592800-64603600	Weak transcription	Pancreas	Pancrea
9	chr2:64593800-64595600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr2:64594000-64595600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr2:64594200-64595800	Enhancers	Fetal Brain Male	brain
12	chr2:64594400-64595800	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr2:64594600-64595600	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr2:64594800-64595800	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr2:64594800-64597200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr2:64595000-64595800	Enhancers	HUES64 Cell Line	embryonic stem cell
17	chr2:64595000-64595800	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr2:64595200-64595600	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr2:64595200-64595600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
20	chr2:64595200-64595600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr2:64595400-64597400	Enhancers	HMEC	breast
22	chr2:64595400-64601000	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links