Variant report

Variant	rs2742349
Chromosome Location	chr2:179542233-179542234
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PLEKHA3-1	chr2:179542227-179542401	ENSG00000237298.4

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1366677	0.84[ASN][1000 genomes]
rs2163008	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2243452	0.84[ASN][1000 genomes]
rs2246932	0.84[ASN][1000 genomes]
rs2252350	0.88[ASN][1000 genomes]
rs2252353	0.88[ASN][1000 genomes]
rs2562843	0.84[ASN][1000 genomes]
rs2562844	0.84[ASN][1000 genomes]
rs2562846	0.84[ASN][1000 genomes]
rs2562847	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2562848	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2562849	0.83[ASN][1000 genomes]
rs2562850	0.88[ASN][1000 genomes]
rs2562851	0.84[ASN][1000 genomes]
rs2627038	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2627039	0.88[ASN][1000 genomes]
rs2742324	0.84[ASN][1000 genomes]
rs2742350	0.88[ASN][1000 genomes]
rs2742352	0.88[ASN][1000 genomes]
rs2742353	0.84[ASN][1000 genomes]
rs2742354	0.84[ASN][1000 genomes]
rs2742355	0.84[ASN][1000 genomes]
rs2742356	0.84[ASN][1000 genomes]
rs2742358	0.84[ASN][1000 genomes]
rs55847232	0.81[ASN][1000 genomes]
rs56101931	0.84[ASN][1000 genomes]
rs72650085	0.84[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	esv2757841	chr2:179409072-179608242	Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2759103	chr2:179409072-179608242	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:179483200-179655400	Weak transcription	Adipose Nuclei	Adipose
2	chr2:179493000-179620800	Weak transcription	HSMM	muscle
3	chr2:179528200-179601200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr2:179528400-179563200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr2:179529600-179600600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr2:179529800-179543800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr2:179530000-179544000	Weak transcription	Psoas Muscle	Psoas
8	chr2:179531000-179543600	Strong transcription	Skeletal Muscle Male	skeletal muscle
9	chr2:179533600-179669200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr2:179534400-179556200	Weak transcription	Primary hematopoietic stem cells	blood
11	chr2:179534400-179576200	Weak transcription	Fetal Intestine Large	intestine
12	chr2:179536600-179544000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr2:179538000-179542400	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr2:179538400-179591800	Weak transcription	Fetal Thymus	thymus
15	chr2:179540000-179546200	Strong transcription	HSMMtube	muscle
16	chr2:179540200-179545200	Strong transcription	Left Ventricle	heart
17	chr2:179540200-179545800	Strong transcription	Fetal Muscle Leg	muscle
18	chr2:179540400-179586800	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr2:179541600-179545000	Strong transcription	Primary T cells from cord blood	blood
20	chr2:179541800-179542600	Strong transcription	Right Ventricle	heart
21	chr2:179541800-179545000	Strong transcription	Primary T cells fromperipheralblood	blood
22	chr2:179541800-179545200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr2:179542000-179559000	Strong transcription	Fetal Heart	heart
24	chr2:179542200-179542600	ZNF genes & repeats	Primary B cells from cord blood	blood
25	chr2:179542200-179542600	ZNF genes & repeats	Primary B cells from peripheral blood	blood
26	chr2:179542200-179542600	Genic enhancers	Skeletal Muscle Female	skeletal muscle
27	chr2:179542200-179542800	Enhancers	Primary neutrophils fromperipheralblood	blood
28	chr2:179542200-179561200	Strong transcription	Primary T helper cells fromperipheralblood	blood

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