Variant report

Variant	rs529496587
Chromosome Location	chr1:224005870-224005871
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	chr1:223999460..224001439-chr1:224004268..224006826,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CAPN2-2	chr1:224005645-224006568	NONHSAT009743

Extended variants
information (count: 8 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3361888	chr1:223725597-224114846	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv1007380	chr1:223834380-224042190	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv535310	chr1:223834380-224042190	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	esv34082	chr1:223851018-224144509	Enhancers Genic enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv1008800	chr1:223904653-224061032	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
6	esv2757772	chr1:223935220-224363163	Genic enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
7	esv2759000	chr1:223935220-224363163	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
8	esv3340448	chr1:224003954-224006502	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:223960200-224025400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:223964400-224008000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr1:223988200-224012000	Weak transcription	Colon Smooth Muscle	Colon
4	chr1:223990600-224007000	Weak transcription	Fetal Brain Male	brain
5	chr1:223991200-224007400	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr1:223991200-224007400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr1:223991200-224010800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr1:223991400-224007600	Weak transcription	Brain Cingulate Gyrus	brain
9	chr1:223993400-224008400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr1:223994600-224007000	Weak transcription	Colonic Mucosa	Colon
11	chr1:223994600-224008200	Weak transcription	Psoas Muscle	Psoas
12	chr1:223995800-224009400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr1:223996000-224007600	Weak transcription	Hela-S3	cervix
14	chr1:223999600-224007800	Weak transcription	Brain Angular Gyrus	brain
15	chr1:223999800-224010800	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr1:224000200-224007400	Weak transcription	Brain Hippocampus Middle	brain
17	chr1:224001000-224010000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr1:224001400-224007600	Weak transcription	Brain Germinal Matrix	brain
19	chr1:224001400-224008400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr1:224001600-224006800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr1:224001800-224010600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr1:224001800-224010800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr1:224002000-224006800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr1:224002000-224006800	Weak transcription	Adipose Nuclei	Adipose
25	chr1:224002000-224006800	Weak transcription	Stomach Smooth Muscle	stomach
26	chr1:224002000-224007600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr1:224002000-224007600	Weak transcription	Fetal Kidney	kidney
28	chr1:224002000-224007600	Weak transcription	Lung	lung
29	chr1:224002000-224007600	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr1:224002000-224008200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr1:224002000-224008200	Weak transcription	Spleen	Spleen
32	chr1:224002000-224008400	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr1:224002000-224015000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr1:224002000-224023800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr1:224002200-224006800	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr1:224002200-224007000	Weak transcription	H1 Cell Line	embryonic stem cell
37	chr1:224002200-224007000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr1:224002200-224007000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr1:224002200-224007200	Weak transcription	Fetal Brain Female	brain
40	chr1:224002200-224007600	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr1:224002200-224007800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr1:224002200-224008000	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr1:224002200-224013000	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr1:224002200-224020200	Weak transcription	Placenta	Placenta
45	chr1:224002200-224020200	Weak transcription	Rectal Smooth Muscle	rectum
46	chr1:224002400-224007400	Weak transcription	Brain Anterior Caudate	brain
47	chr1:224002400-224007400	Weak transcription	NHLF	lung
48	chr1:224002400-224007600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr1:224002400-224007600	Weak transcription	Duodenum Mucosa	Duodenum
50	chr1:224002400-224007800	Weak transcription	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links