Variant report

Variant	rs531657822
Chromosome Location	chr9:1042348-1042349
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C9orf66-6	chr9:1041868-1042520	XLOC_007630

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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	nsv1025492	chr9:478813-1157169	Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv539897	chr9:478813-1157169	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv613037	chr9:643453-1138368	Strong transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv817248	chr9:706283-1457665	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	nsv892010	chr9:841152-1069663	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1034070	chr9:911265-1152351	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv892013	chr9:943611-1047343	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv1016222	chr9:999390-1284180	Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv1025752	chr9:1003311-1124524	Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv1027466	chr9:1007196-1097053	Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv1033117	chr9:1007196-1129306	Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv1016321	chr9:1034594-1592366	Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
13	nsv539908	chr9:1034594-1592366	Bivalent Enhancer Bivalent/Poised TSS Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
14	esv3438102	chr9:1041552-1044150	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:1041400-1043800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
2	chr9:1041800-1042400	Bivalent/Poised TSS	Primary T cells from cord blood	blood
3	chr9:1041800-1042400	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
4	chr9:1042000-1042400	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
5	chr9:1042000-1042400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
6	chr9:1042000-1042400	Bivalent Enhancer	Fetal Kidney	kidney
7	chr9:1042000-1042400	Bivalent/Poised TSS	Psoas Muscle	Psoas
8	chr9:1042000-1042600	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr9:1042000-1042600	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
10	chr9:1042000-1042600	Bivalent Enhancer	Brain Substantia Nigra	brain
11	chr9:1042000-1042600	Bivalent Enhancer	Fetal Lung	lung
12	chr9:1042000-1042600	Bivalent Enhancer	Fetal Thymus	thymus
13	chr9:1042000-1042800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
14	chr9:1042000-1042800	Bivalent/Poised TSS	Brain Anterior Caudate	brain
15	chr9:1042000-1042800	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
16	chr9:1042000-1042800	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
17	chr9:1042000-1042800	Enhancers	Lung	lung
18	chr9:1042000-1043000	Bivalent/Poised TSS	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr9:1042200-1042400	Flanking Bivalent TSS/Enh	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr9:1042200-1042400	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
21	chr9:1042200-1042400	Flanking Bivalent TSS/Enh	Primary T helper naive cells fromperipheralblood	blood
22	chr9:1042200-1042400	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
23	chr9:1042200-1042400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr9:1042200-1042400	Bivalent Enhancer	Aorta	Aorta
25	chr9:1042200-1042400	Bivalent Enhancer	Liver	Liver
26	chr9:1042200-1042400	Bivalent Enhancer	Brain Germinal Matrix	brain
27	chr9:1042200-1042400	Bivalent Enhancer	Duodenum Smooth Muscle	Duodenum
28	chr9:1042200-1042400	Enhancers	Pancreas	Pancrea
29	chr9:1042200-1042400	Bivalent Enhancer	Rectal Mucosa Donor 31	rectum
30	chr9:1042200-1042400	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
31	chr9:1042200-1042400	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
32	chr9:1042200-1042400	Bivalent Enhancer	Stomach Smooth Muscle	stomach
33	chr9:1042200-1042600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
34	chr9:1042200-1042600	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
35	chr9:1042200-1042600	Bivalent/Poised TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr9:1042200-1042600	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr9:1042200-1042600	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
38	chr9:1042200-1042600	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
39	chr9:1042200-1042600	Bivalent/Poised TSS	Brain Angular Gyrus	brain
40	chr9:1042200-1042600	Flanking Bivalent TSS/Enh	Brain Hippocampus Middle	brain
41	chr9:1042200-1042600	Bivalent Enhancer	Fetal Heart	heart
42	chr9:1042200-1042600	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
43	chr9:1042200-1042600	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
44	chr9:1042200-1042600	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
45	chr9:1042200-1042800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr9:1042200-1042800	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
47	chr9:1042200-1042800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
48	chr9:1042200-1042800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
49	chr9:1042200-1042800	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
50	chr9:1042200-1042800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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