Variant report

Variant	rs74088637
Chromosome Location	chr13:53270191-53270192
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	chr13:53270072..53270943-chr2:854831..855664,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LECT1-1	chr13:53268955-53274883	ENSG00000248190

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs74087391	0.81[AFR][1000 genomes]
rs74087399	0.90[AFR][1000 genomes]
rs74088610	0.90[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040931	chr13:52564792-53350914	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
2	nsv541773	chr13:52564792-53350914	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
3	nsv820041	chr13:53061338-53280588	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv1044949	chr13:53071140-53289426	Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv1044051	chr13:53139132-53287023	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	nsv1038942	chr13:53139132-53289426	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
7	nsv1039911	chr13:53139132-53303074	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
8	nsv1037189	chr13:53173013-53287060	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
9	nsv541775	chr13:53173013-53287060	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
10	nsv1047265	chr13:53173013-53311419	Active TSS Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
11	nsv541776	chr13:53173013-53311419	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
12	nsv530719	chr13:53173014-53675953	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
13	nsv900088	chr13:53250839-53274936	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	esv1833952	chr13:53262175-53274936	Weak transcription Strong transcription ZNF genes & repeats Enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:53229000-53276600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr13:53230800-53277400	Weak transcription	Gastric	stomach
3	chr13:53235200-53276000	Weak transcription	Right Ventricle	heart
4	chr13:53240600-53275800	Weak transcription	K562	blood
5	chr13:53242800-53278600	Weak transcription	Psoas Muscle	Psoas
6	chr13:53254200-53275800	Weak transcription	Fetal Heart	heart
7	chr13:53254800-53273600	Weak transcription	Fetal Kidney	kidney
8	chr13:53255800-53273800	Weak transcription	A549	lung
9	chr13:53255800-53277600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr13:53256000-53270600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr13:53256000-53282600	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr13:53256600-53297800	Weak transcription	Pancreas	Pancrea
13	chr13:53257000-53272000	Weak transcription	NHLF	lung
14	chr13:53259600-53271800	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr13:53259800-53270200	Weak transcription	Spleen	Spleen
16	chr13:53260000-53277600	Weak transcription	Brain Hippocampus Middle	brain
17	chr13:53260200-53277600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr13:53260400-53273800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr13:53260400-53279200	Weak transcription	Aorta	Aorta
20	chr13:53260600-53270600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr13:53260600-53271400	Weak transcription	Stomach Smooth Muscle	stomach
22	chr13:53260600-53272200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr13:53260600-53275400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr13:53260600-53275800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr13:53260800-53272000	Weak transcription	Rectal Smooth Muscle	rectum
26	chr13:53260800-53272600	Weak transcription	Fetal Stomach	stomach
27	chr13:53260800-53272800	Weak transcription	Left Ventricle	heart
28	chr13:53260800-53274200	Weak transcription	Thymus	Thymus
29	chr13:53260800-53274800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr13:53260800-53275200	Weak transcription	Ovary	ovary
31	chr13:53260800-53276000	Weak transcription	Fetal Muscle Leg	muscle
32	chr13:53260800-53280400	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr13:53260800-53297000	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr13:53261000-53285200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr13:53262200-53276000	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr13:53262400-53271600	Weak transcription	Colon Smooth Muscle	Colon
37	chr13:53262400-53274600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
38	chr13:53262400-53276600	Weak transcription	Placenta	Placenta
39	chr13:53262400-53276800	Weak transcription	NH-A	brain
40	chr13:53262600-53285600	Weak transcription	HMEC	breast
41	chr13:53262800-53273400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr13:53262800-53275200	Weak transcription	Fetal Thymus	thymus
43	chr13:53262800-53275600	Weak transcription	Primary T cells from cord blood	blood
44	chr13:53262800-53277800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr13:53263000-53275000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr13:53263000-53281800	Weak transcription	Fetal Brain Male	brain
47	chr13:53263400-53273200	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr13:53263400-53274600	Weak transcription	Primary B cells from cord blood	blood
49	chr13:53263400-53275000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr13:53263400-53275200	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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