Variant report

Variant	rs7395672
Chromosome Location	chr11:65488982-65488983
allele	A/G
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:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:65484089..65489445-chr11:65545173..65550834,9	K562	blood:
2	chr11:65487520..65489937-chr11:65492095..65496093,4	MCF-7	breast:
3	chr11:65485004..65489716-chr11:65621545..65626984,9	K562	blood:
4	chr11:65482499..65489390-chr11:65622947..65628870,15	MCF-7	breast:
5	chr11:65487808..65489743-chr11:65627431..65628962,2	K562	blood:
6	chr11:65484089..65489642-chr11:65545405..65550834,8	K562	blood:
7	chr11:65488838..65491538-chr11:65497490..65499869,2	K562	blood:
8	chr11:65486247..65489385-chr11:65493532..65496912,4	MCF-7	breast:
9	chr11:65488196..65490800-chr11:65684778..65687737,2	MCF-7	breast:
10	chr11:65485735..65490975-chr11:65621882..65626984,8	K562	blood:
11	chr11:65487463..65490934-chr11:65492571..65495479,8	K562	blood:
12	chr11:65487099..65491310-chr11:65543476..65547938,6	MCF-7	breast:
13	chr11:65485673..65489789-chr11:65654054..65658887,6	K562	blood:
14	chr11:65487717..65490491-chr11:65548061..65551683,3	MCF-7	breast:

No data

No data

No data

Variant related genes	Relation type
ENSG00000175827	Chromatin interaction
ENSG00000175550	Chromatin interaction
ENSG00000172500	Chromatin interaction
ENSG00000172732	Chromatin interaction
ENSG00000172757	Chromatin interaction
ENSG00000175573	Chromatin interaction
ENSG00000214659	Chromatin interaction
ENSG00000254470	Chromatin interaction
ENSG00000175602	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10896027	0.83[CHB][hapmap]
rs11227261	0.82[MEX][hapmap];0.86[MKK][hapmap];0.82[YRI][hapmap]
rs11227275	0.95[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2448490	0.82[MEX][hapmap]
rs2509948	0.82[MEX][hapmap]
rs3372	0.92[ASW][hapmap];0.82[MEX][hapmap];0.90[MKK][hapmap];0.86[YRI][hapmap]
rs4930156	0.82[MEX][hapmap]
rs4930304	0.80[MEX][hapmap]
rs507859	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs535111	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs555465	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs573589	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.95[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7944860	0.82[MEX][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	nsv897718	chr11:65140209-65577516	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1003 gene(s)	inside rSNPs	diseases
2	nsv897736	chr11:65335705-65676516	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	227 gene(s)	inside rSNPs	diseases
3	nsv430401	chr11:65419324-65788024	Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	224 gene(s)	inside rSNPs	diseases
4	esv3343642	chr11:65487401-65489949	Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs7395672	PRDX5	cis	parietal	SCAN
rs7395672	RNASEH2C	cis	parietal	SCAN
rs7395672	MRGPRD	cis	parietal	SCAN
rs7395672	SIPA1	cis	cerebellum	SCAN
rs7395672	ZBTB3	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:65488400-65489400	Enhancers	Dnd41	blood
2	chr11:65488400-65490600	Weak transcription	Brain Hippocampus Middle	brain
3	chr11:65488400-65490600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr11:65488400-65491600	Weak transcription	Right Atrium	heart
5	chr11:65488400-65492400	Weak transcription	Placenta	Placenta
6	chr11:65488400-65494200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr11:65488400-65496200	Weak transcription	Brain Cingulate Gyrus	brain
8	chr11:65488800-65489000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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