Variant report

Variant	rs73277171
Chromosome Location	chr14:39308325-39308326
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr14:39308300-39308349	MCF-7	breast:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SEC23A-1	chr14:39308093-39308408	ENSG00000259070.1
2	lnc-SEC23A-1	chr14:39308050-39308408	ENSG00000259070.1

Variant related genes	Relation type
LINC00639	TF binding region

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs2064957	1.00[AMR][1000 genomes]
rs2064958	1.00[AMR][1000 genomes]
rs57949090	1.00[AMR][1000 genomes]
rs73277188	1.00[AMR][1000 genomes]
rs73281360	1.00[AMR][1000 genomes]
rs73281373	1.00[AMR][1000 genomes]
rs73281378	1.00[AMR][1000 genomes]
rs73281380	1.00[AMR][1000 genomes]
rs8006698	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054457	chr14:39114181-39317483	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv564416	chr14:39140536-39440106	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv470631	chr14:39153764-39440106	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	esv3429206	chr14:39160730-39648836	Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
5	nsv932194	chr14:39173578-39411337	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:39305800-39308400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr14:39305800-39310800	Weak transcription	Brain Substantia Nigra	brain
3	chr14:39305800-39311800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr14:39306000-39312000	Enhancers	Primary neutrophils fromperipheralblood	blood
5	chr14:39306200-39311400	Enhancers	Hela-S3	cervix
6	chr14:39306600-39308400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr14:39306600-39308400	Enhancers	Stomach Mucosa	stomach
8	chr14:39306600-39309000	Enhancers	Rectal Mucosa Donor 29	rectum
9	chr14:39307000-39308400	Enhancers	Colonic Mucosa	Colon
10	chr14:39307000-39308800	Enhancers	Rectal Mucosa Donor 31	rectum
11	chr14:39307200-39308600	Enhancers	HUVEC	blood vessel
12	chr14:39307400-39308600	Weak transcription	Fetal Intestine Small	intestine
13	chr14:39308000-39308400	Weak transcription	Left Ventricle	heart
14	chr14:39308000-39308800	Enhancers	Brain Anterior Caudate	brain
15	chr14:39308000-39310600	Enhancers	Primary hematopoietic stem cells	blood
16	chr14:39308200-39308400	Genic enhancers	Brain Cingulate Gyrus	brain
17	chr14:39308200-39309000	Enhancers	Gastric	stomach
18	chr14:39308200-39309200	Enhancers	Ovary	ovary
19	chr14:39308200-39311600	Weak transcription	Brain Hippocampus Middle	brain
20	chr14:39308200-39313200	Weak transcription	Sigmoid Colon	Sigmoid Colon

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