Variant report

Variant	rs2405135
Chromosome Location	chr5:79419009-79419010
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:79417050..79419416-chr5:79551454..79553620,2	K562	blood:

Variant related genes	Relation type
ENSG00000164300	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs12520301	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1470025	0.84[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2164993	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4703799	0.82[JPT][hapmap];0.86[ASN][1000 genomes]
rs4703800	0.88[ASN][1000 genomes]
rs4704610	0.94[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4704615	1.00[CHB][hapmap];0.88[JPT][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432748	chr5:79300434-79577760	Enhancers Genic enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv598744	chr5:79388745-79423347	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:79406200-79421000	Weak transcription	Right Ventricle	heart
2	chr5:79407400-79424000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr5:79409800-79420800	Weak transcription	Thymus	Thymus
4	chr5:79410000-79430800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr5:79412600-79424200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr5:79413400-79419600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr5:79413600-79420600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr5:79414000-79420000	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr5:79414800-79420400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr5:79415000-79419600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr5:79415400-79419800	Weak transcription	Fetal Muscle Trunk	muscle
12	chr5:79415600-79420600	Weak transcription	Brain Anterior Caudate	brain
13	chr5:79415800-79419400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr5:79417000-79437000	Weak transcription	Pancreas	Pancrea
15	chr5:79417400-79425400	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr5:79417400-79430400	Weak transcription	Dnd41	blood
17	chr5:79417600-79420600	Weak transcription	Fetal Intestine Small	intestine
18	chr5:79417600-79421800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
19	chr5:79417800-79420400	Weak transcription	Fetal Thymus	thymus
20	chr5:79418000-79421000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr5:79418200-79420000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr5:79418200-79421200	Enhancers	Primary T helper cells PMA-I stimulated	--
23	chr5:79418200-79422200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
24	chr5:79418200-79424000	Weak transcription	Fetal Stomach	stomach
25	chr5:79418400-79421600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr5:79418600-79419800	Enhancers	Placenta	Placenta
27	chr5:79418600-79423200	Enhancers	Primary T helper cells fromperipheralblood	blood
28	chr5:79418800-79419200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr5:79418800-79419600	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr5:79418800-79420000	Weak transcription	GM12878-XiMat	blood
31	chr5:79419000-79419200	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr5:79419000-79419600	Enhancers	Primary T cells from cord blood	blood
33	chr5:79419000-79421800	Weak transcription	Primary neutrophils fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links