Variant report

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10156149	0.81[JPT][hapmap]
rs10241767	0.90[CHB][hapmap];0.88[CHD][hapmap];0.84[ASN][1000 genomes]
rs10485976	0.84[CHB][hapmap];0.93[JPT][hapmap];1.00[MKK][hapmap]
rs12672447	0.95[CHB][hapmap];0.87[JPT][hapmap]
rs16872944	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17145200	0.95[MKK][hapmap]
rs17145249	0.84[CHB][hapmap];1.00[MKK][hapmap]
rs17145261	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs17145274	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs17145312	1.00[CHB][hapmap];0.93[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17145412	0.86[JPT][hapmap];1.00[MEX][hapmap]
rs17145452	0.86[JPT][hapmap]
rs1989906	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2074328	0.86[JPT][hapmap];0.82[AMR][1000 genomes]
rs2074331	0.91[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes]
rs2286270	0.87[JPT][hapmap]
rs4141348	0.86[JPT][hapmap];0.82[AMR][1000 genomes]
rs60175069	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7793192	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7796262	0.84[CHB][hapmap]

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	nsv1018133	chr7:21740118-22055283	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1016063	chr7:21740433-21808410	Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv830922	chr7:21793386-21964675	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv470177	chr7:21801125-21817048	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1989904	TRA2A	cis	parietal	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:21796600-21810000	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr7:21803400-21808000	Enhancers	Fetal Heart	heart
3	chr7:21804000-21808000	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr7:21805200-21810000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr7:21805400-21810200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr7:21805400-21810600	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr7:21805600-21809600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr7:21805600-21813800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr7:21805600-21813800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr7:21805800-21810800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr7:21806200-21812400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr7:21807000-21810200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr7:21807200-21811600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr7:21807600-21810000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr7:21807800-21809400	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr7:21807800-21810000	Weak transcription	H1 Cell Line	embryonic stem cell

Quick Search: