Variant report

Variant	rs13335464
Chromosome Location	chr16:58528067-58528068
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:58525306..58531379-chr16:58532003..58537779,6	MCF-7	breast:
2	chr16:58370354..58371227-chr16:58528034..58529109,3	K562	blood:
3	chr16:58526665..58528310-chr16:58532344..58534554,2	K562	blood:

Variant related genes	Relation type
ENSG00000103034	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs13329892	1.00[EUR][1000 genomes]
rs13334745	1.00[EUR][1000 genomes]
rs13335851	1.00[EUR][1000 genomes]
rs13335953	1.00[EUR][1000 genomes]
rs13337650	1.00[EUR][1000 genomes]
rs13339352	1.00[EUR][1000 genomes]
rs28394663	1.00[EUR][1000 genomes]
rs28468502	1.00[EUR][1000 genomes]
rs28472773	1.00[EUR][1000 genomes]
rs28530777	1.00[EUR][1000 genomes]
rs28533067	1.00[EUR][1000 genomes]
rs28613241	1.00[EUR][1000 genomes]
rs28644182	1.00[EUR][1000 genomes]
rs28744389	1.00[EUR][1000 genomes]
rs34698978	1.00[EUR][1000 genomes]
rs57335704	1.00[EUR][1000 genomes]
rs7186446	1.00[EUR][1000 genomes]
rs7193580	1.00[EUR][1000 genomes]
rs73558468	1.00[EUR][1000 genomes]
rs8048686	1.00[EUR][1000 genomes]
rs9746055	1.00[EUR][1000 genomes]
rs9923409	1.00[EUR][1000 genomes]
rs9924494	1.00[EUR][1000 genomes]
rs9926053	1.00[EUR][1000 genomes]
rs9930277	1.00[EUR][1000 genomes]
rs9938192	1.00[EUR][1000 genomes]
rs9938386	1.00[EUR][1000 genomes]
rs9939324	1.00[EUR][1000 genomes]
rs9941013	1.00[EUR][1000 genomes]
rs9941175	1.00[EUR][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	nsv532532	chr16:58116482-58611986	Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv528512	chr16:58513813-58549014	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	n/a
3	esv1803007	chr16:58515901-58553164	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	n/a
4	nsv1058290	chr16:58521026-58546709	Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	n/a
5	nsv527052	chr16:58521090-58542901	Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:58508400-58528800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr16:58508800-58533600	Weak transcription	Lung	lung
3	chr16:58521800-58529200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr16:58522000-58529400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr16:58522000-58529400	Weak transcription	Esophagus	oesophagus
6	chr16:58522000-58529400	Weak transcription	HSMM	muscle
7	chr16:58522000-58533000	Weak transcription	Spleen	Spleen
8	chr16:58522200-58528200	Weak transcription	Brain Angular Gyrus	brain
9	chr16:58522200-58529400	Weak transcription	Right Atrium	heart
10	chr16:58522400-58529800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr16:58522600-58534000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr16:58523600-58530400	Weak transcription	K562	blood
13	chr16:58525200-58529400	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr16:58525800-58528600	Genic enhancers	Left Ventricle	heart
15	chr16:58526000-58528800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr16:58526000-58528800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr16:58526000-58529400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr16:58526000-58529600	Genic enhancers	Right Ventricle	heart
19	chr16:58526200-58531000	Enhancers	Fetal Brain Male	brain
20	chr16:58526400-58528800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr16:58526400-58529000	Enhancers	Brain Hippocampus Middle	brain
22	chr16:58526400-58529200	Enhancers	Brain Cingulate Gyrus	brain
23	chr16:58526600-58528400	Enhancers	Fetal Brain Female	brain
24	chr16:58526800-58528800	Enhancers	Brain Inferior Temporal Lobe	brain
25	chr16:58526800-58528800	Weak transcription	Fetal Heart	heart
26	chr16:58527000-58528800	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr16:58527000-58528800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr16:58527000-58528800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr16:58527000-58529200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
30	chr16:58527200-58528200	Weak transcription	Brain Substantia Nigra	brain
31	chr16:58527200-58528800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr16:58527200-58528800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr16:58527200-58529400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr16:58527400-58528800	Enhancers	Brain Germinal Matrix	brain
35	chr16:58527600-58529200	Enhancers	Fetal Muscle Trunk	muscle
36	chr16:58527600-58530800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr16:58527800-58528800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr16:58527800-58528800	Enhancers	Brain Anterior Caudate	brain
39	chr16:58527800-58530200	Enhancers	Fetal Muscle Leg	muscle
40	chr16:58527800-58531000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links