Variant report

Variant	rs13142370
Chromosome Location	chr4:26289961-26289962
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:26281907..26283732-chr4:26289756..26291455,2	MCF-7	breast:
2	chr1:23670584..23671121-chr4:26289340..26290088,2	NB4	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCKAR-6	chr4:26289823-26290071	NONHSAT095869

Variant related genes	Relation type
ENSG00000125944	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10461084	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10939104	0.90[ASN][1000 genomes]
rs1112771	0.89[ASN][1000 genomes]
rs11728265	0.92[ASN][1000 genomes]
rs12639856	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13109468	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13113988	0.81[ASN][1000 genomes]
rs13114817	0.91[ASN][1000 genomes]
rs13115664	0.81[ASN][1000 genomes]
rs13123863	0.84[ASN][1000 genomes]
rs13138863	0.89[ASN][1000 genomes]
rs1397730	0.93[ASN][1000 genomes]
rs2063444	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2136990	0.81[ASN][1000 genomes]
rs2309359	0.81[ASN][1000 genomes]
rs2871198	0.81[ASN][1000 genomes]
rs4256214	0.81[ASN][1000 genomes]
rs56251266	0.85[ASN][1000 genomes]
rs9996988	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829889	chr4:26169954-26338313	Active TSS Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv519405	chr4:26284472-26292555	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv593852	chr4:26284472-26292636	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv1793856	chr4:26284472-26294886	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	esv1794278	chr4:26284472-26294886	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	esv1798961	chr4:26284472-26294886	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv593853	chr4:26286920-26295174	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26282000-26290800	Weak transcription	Placenta	Placenta
2	chr4:26284000-26290000	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr4:26284200-26290000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr4:26284200-26290000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr4:26284400-26290000	Weak transcription	NHLF	lung
6	chr4:26286400-26290000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr4:26289400-26290000	Enhancers	NHDF-Ad	bronchial
8	chr4:26289400-26290200	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr4:26289400-26290400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
10	chr4:26289400-26291200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
11	chr4:26289600-26290200	Enhancers	Adipose Nuclei	Adipose
12	chr4:26289600-26290400	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr4:26289600-26290400	Flanking Active TSS	GM12878-XiMat	blood
14	chr4:26289600-26290600	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr4:26289600-26290600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr4:26289600-26290800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr4:26289600-26290800	Enhancers	Muscle Satellite Cultured Cells	--
18	chr4:26289600-26291200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr4:26289600-26291200	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr4:26289600-26292000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr4:26289600-26293000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr4:26289800-26290000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr4:26289800-26290000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
24	chr4:26289800-26290000	Enhancers	Colon Smooth Muscle	Colon
25	chr4:26289800-26290000	Enhancers	Fetal Muscle Leg	muscle
26	chr4:26289800-26290200	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
27	chr4:26289800-26290200	Active TSS	Primary B cells from cord blood	blood
28	chr4:26289800-26290200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr4:26289800-26290400	Enhancers	Primary B cells from peripheral blood	blood
30	chr4:26289800-26290400	Enhancers	Fetal Stomach	stomach
31	chr4:26289800-26290600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
32	chr4:26289800-26290600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr4:26289800-26290600	Enhancers	Cortex derived primary cultured neurospheres	brain
34	chr4:26289800-26290600	Enhancers	NH-A	brain
35	chr4:26289800-26290600	Enhancers	Osteobl	bone
36	chr4:26289800-26290800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr4:26289800-26291400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr4:26289800-26292000	Enhancers	NHEK	skin

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