Variant report

Variant	rs4524726
Chromosome Location	chr7:104414321-104414322
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10249174	0.93[LWK][hapmap]
rs13221774	0.83[CEU][hapmap];1.00[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs35293298	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs4130477	1.00[CHD][hapmap];0.93[MEX][hapmap]
rs4490766	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56214042	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62485077	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7458419	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv429790	chr7:104314049-104488049	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv429792	chr7:104400049-104488049	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv5887	chr7:104401250-104491604	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1030875	chr7:104409391-104472647	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1028479	chr7:104409391-104479087	Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv528392	chr7:104411273-104466675	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv522743	chr7:104411273-104486707	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4524726	CDHR3	cis	cerebellum	SCAN
rs4524726	FLJ36031	cis	cerebellum	SCAN
rs4524726	MLL5	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:104411400-104414400	Enhancers	H1 Cell Line	embryonic stem cell
2	chr7:104412600-104414400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
3	chr7:104412600-104414600	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr7:104412800-104414400	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr7:104412800-104414800	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr7:104412800-104415800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr7:104413000-104414400	Enhancers	Brain Hippocampus Middle	brain
8	chr7:104413000-104414600	Enhancers	H9 Cell Line	embryonic stem cell
9	chr7:104413200-104414600	Enhancers	Brain Anterior Caudate	brain
10	chr7:104413200-104417800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr7:104413400-104414400	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr7:104413400-104414400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr7:104413400-104414800	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr7:104413400-104416000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr7:104413800-104417000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr7:104413800-104424000	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr7:104414200-104414400	Enhancers	Brain Cingulate Gyrus	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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