Variant report

Variant	rs9853974
Chromosome Location	chr3:142414888-142414889
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11707735	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1533939	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28542299	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3773504	0.93[ASN][1000 genomes]
rs55983184	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58655761	0.80[ASN][1000 genomes]
rs66813358	0.96[EUR][1000 genomes]
rs67495151	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73230574	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73230576	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73230577	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9823492	0.88[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs9849265	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932989	chr3:142204208-142423305	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv591920	chr3:142411200-142496951	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv521098	chr3:142411200-142503605	Weak transcription Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142366000-142435400	Weak transcription	Colonic Mucosa	Colon
2	chr3:142385800-142415400	Weak transcription	A549	lung
3	chr3:142389800-142442400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr3:142392800-142418000	Weak transcription	HepG2	liver
5	chr3:142392800-142425400	Weak transcription	Dnd41	blood
6	chr3:142392800-142433000	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr3:142393000-142426000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr3:142393400-142426200	Weak transcription	Primary hematopoietic stem cells	blood
9	chr3:142404200-142418000	Weak transcription	HMEC	breast
10	chr3:142404600-142416200	Weak transcription	Fetal Intestine Small	intestine
11	chr3:142407200-142417000	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr3:142408800-142430400	Weak transcription	Liver	Liver
13	chr3:142412800-142416600	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr3:142412800-142426600	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr3:142413200-142422600	Weak transcription	Duodenum Mucosa	Duodenum

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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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