Variant report

Variant	rs10053439
Chromosome Location	chr5:15571119-15571120
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10063929	0.83[AMR][1000 genomes]
rs10064400	0.83[AMR][1000 genomes]
rs10067454	0.83[AMR][1000 genomes]
rs10079843	0.83[AMR][1000 genomes]
rs10475065	0.83[AMR][1000 genomes]
rs11960780	1.00[AMR][1000 genomes]
rs13354129	0.83[AMR][1000 genomes]
rs13362417	0.83[AMR][1000 genomes]
rs34723945	1.00[AMR][1000 genomes]
rs58390853	1.00[AMR][1000 genomes]
rs7729228	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]

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	nsv516929	chr5:15087791-15870300	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1023068	chr5:15095221-15863583	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv869040	chr5:15097602-15866117	Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv530222	chr5:15151662-15851485	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:15512200-15571200	Weak transcription	HUVEC	blood vessel
2	chr5:15555800-15571800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr5:15555800-15584200	Weak transcription	HSMM	muscle
4	chr5:15558800-15574800	Weak transcription	Fetal Stomach	stomach
5	chr5:15559200-15574800	Weak transcription	Aorta	Aorta
6	chr5:15560800-15573600	Weak transcription	Fetal Kidney	kidney
7	chr5:15562400-15573600	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr5:15564000-15574800	Weak transcription	Fetal Muscle Leg	muscle
9	chr5:15567000-15573000	Weak transcription	Colon Smooth Muscle	Colon
10	chr5:15567200-15573000	Weak transcription	Brain Cingulate Gyrus	brain
11	chr5:15567200-15580600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr5:15567400-15572800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr5:15567400-15573200	Weak transcription	Brain Anterior Caudate	brain
14	chr5:15567400-15573200	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr5:15567400-15573400	Weak transcription	Brain Substantia Nigra	brain
16	chr5:15570600-15575800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr5:15570600-15576200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr5:15570800-15573600	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr5:15571000-15577200	Weak transcription	Right Ventricle	heart

Quick Search:

Input of quick search could be:

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

what's new

Quick links