Variant report

Variant	rs138220184
Chromosome Location	chr3:138544186-138544187
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:138541276..138545209-chr3:138550830..138554565,5	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C3orf72-4	chr3:138543905-138545171	NONHSAT092341

Variant related genes	Relation type
ENSG00000051382	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530057	chr3:138014877-138734390	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv1013074	chr3:138213166-138737688	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv1002612	chr3:138213274-138831792	Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv536726	chr3:138213274-138831792	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	nsv1009726	chr3:138219923-138737688	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
6	nsv869205	chr3:138248190-138775288	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
7	nsv868955	chr3:138248190-138848947	Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
8	nsv591854	chr3:138348081-138764229	Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
9	nsv1010514	chr3:138365640-138737688	Flanking Bivalent TSS/Enh Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
10	nsv1000927	chr3:138423543-138632596	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
11	nsv917964	chr3:138440701-138699084	Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
12	nsv967072	chr3:138543196-138550847	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:138504000-138552000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:138506000-138551800	Weak transcription	Primary B cells from cord blood	blood
3	chr3:138513400-138544400	Weak transcription	Fetal Muscle Leg	muscle
4	chr3:138528800-138552600	Weak transcription	Colonic Mucosa	Colon
5	chr3:138529400-138544400	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr3:138535000-138544200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr3:138535200-138551600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:138537000-138552200	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr3:138537200-138544200	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr3:138537200-138544200	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr3:138537200-138548400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr3:138537200-138552000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr3:138537200-138552200	Weak transcription	Colon Smooth Muscle	Colon
14	chr3:138537400-138544400	Weak transcription	Spleen	Spleen
15	chr3:138537400-138551400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr3:138537400-138552200	Weak transcription	Brain Anterior Caudate	brain
17	chr3:138537600-138544200	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr3:138537600-138544200	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr3:138537600-138544200	Weak transcription	Duodenum Mucosa	Duodenum
20	chr3:138537600-138544400	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr3:138537600-138544400	Weak transcription	Stomach Smooth Muscle	stomach
22	chr3:138537600-138549000	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr3:138537600-138551200	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr3:138537600-138551400	Weak transcription	Primary B cells from peripheral blood	blood
25	chr3:138537600-138551400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr3:138537600-138552000	Weak transcription	Brain Hippocampus Middle	brain
27	chr3:138537600-138552200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr3:138537600-138552200	Weak transcription	Brain Substantia Nigra	brain
29	chr3:138537600-138552400	Weak transcription	Brain Angular Gyrus	brain
30	chr3:138537600-138552400	Weak transcription	Brain Cingulate Gyrus	brain
31	chr3:138537600-138552600	Weak transcription	Ovary	ovary
32	chr3:138538000-138544400	Weak transcription	Psoas Muscle	Psoas
33	chr3:138538200-138544200	Weak transcription	Right Atrium	heart
34	chr3:138538200-138544400	Weak transcription	Lung	lung
35	chr3:138539200-138551200	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr3:138539200-138552200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr3:138539400-138544600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr3:138539400-138544600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr3:138540600-138545600	Weak transcription	Brain Germinal Matrix	brain
40	chr3:138541400-138544400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr3:138542600-138544400	Enhancers	Fetal Heart	heart
42	chr3:138542600-138544400	Weak transcription	Fetal Muscle Trunk	muscle
43	chr3:138542800-138544200	Weak transcription	Esophagus	oesophagus
44	chr3:138542800-138544400	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr3:138542800-138544600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr3:138543000-138544200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
47	chr3:138543000-138544200	Weak transcription	Adipose Nuclei	Adipose
48	chr3:138543000-138544200	Enhancers	Left Ventricle	heart
49	chr3:138543000-138544200	Strong transcription	Monocytes-CD14+_RO01746	blood
50	chr3:138543000-138544800	Genic enhancers	HepG2	liver

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