Variant report

Variant	rs542737828
Chromosome Location	chr1:45189807-45189808
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:5)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:5 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAX	chr1:45188846-45190776	NB4	blood:	n/a	n/a
2	POLR2A	chr1:45188746-45191415	HL-60	blood:	n/a	n/a
3	POLR2A	chr1:45188772-45191165	HL-60	blood:	n/a	n/a
4	MYC	chr1:45188879-45190790	NB4	blood:	n/a	n/a
5	POLR2A	chr1:45188941-45190728	NB4	blood:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:45184712..45189957-chr1:45986029..45989344,7	K562	blood:
2	chr1:45095364..45099259-chr1:45185766..45189852,13	K562	blood:
3	chr1:45179633..45191596-chr1:45283435..45288613,20	MCF-7	breast:
4	chr1:45086647..45106769-chr1:45179099..45192041,56	K562	blood:
5	chr1:45178001..45208867-chr1:45262751..45305400,520	K562	blood:
6	chr1:45183794..45190315-chr1:45281186..45287888,32	MCF-7	breast:
7	chr1:45178748..45209946-chr1:45262890..45299284,515	K562	blood:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KIF2C-3	chr1:45189657-45190034	NONHSAT002889
2	lnc-KIF2C-3	chr1:45189794-45189976	NONHSAT002888

No data

Variant related genes	Relation type
RNU5F-1	TF binding region
C1orf228	TF binding region
ENSG00000173846	Chromatin interaction
ENSG00000222009	Chromatin interaction
ENSG00000188396	Chromatin interaction
ENSG00000202444	Chromatin interaction
ENSG00000117450	Chromatin interaction
ENSG00000187147	Chromatin interaction
ENSG00000117425	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533037	chr1:44361728-45333408	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	469 gene(s)	inside rSNPs	diseases
2	nsv1004861	chr1:44843654-45210176	Flanking Active TSS Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	346 gene(s)	inside rSNPs	diseases
3	nsv534940	chr1:44843654-45210176	Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	346 gene(s)	inside rSNPs	diseases
4	nsv998476	chr1:45001278-45311757	Flanking Active TSS Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	426 gene(s)	inside rSNPs	diseases
5	nsv534941	chr1:45001278-45311757	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer 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	426 gene(s)	inside rSNPs	diseases
6	nsv1014894	chr1:45139123-45397943	Flanking Active TSS Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	414 gene(s)	inside rSNPs	diseases
7	nsv529677	chr1:45179509-45748571	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	424 gene(s)	inside rSNPs	diseases
8	nsv1002026	chr1:45187594-45758048	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	386 gene(s)	inside rSNPs	diseases
9	esv3375806	chr1:45189190-45191738	Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:45174400-45190400	Weak transcription	Lung	lung
2	chr1:45181200-45194800	Weak transcription	Brain Anterior Caudate	brain
3	chr1:45184000-45191000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr1:45185200-45190600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr1:45185200-45192400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:45185600-45192200	Weak transcription	NHDF-Ad	bronchial
7	chr1:45185600-45194800	Weak transcription	Dnd41	blood
8	chr1:45186000-45190200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
9	chr1:45186200-45192400	Weak transcription	HSMM	muscle
10	chr1:45187800-45196200	Weak transcription	Right Atrium	heart
11	chr1:45188000-45190800	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr1:45188000-45191000	Weak transcription	HepG2	liver
13	chr1:45188000-45192400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr1:45188000-45192400	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr1:45188000-45192400	Weak transcription	A549	lung
16	chr1:45188000-45192400	Weak transcription	Osteobl	bone
17	chr1:45188000-45195800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr1:45188200-45190800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr1:45188600-45190800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr1:45188600-45190800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
21	chr1:45188800-45190000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
22	chr1:45188800-45190000	Flanking Active TSS	Primary T cells from cord blood	blood
23	chr1:45188800-45190000	Flanking Active TSS	Primary T cells fromperipheralblood	blood
24	chr1:45188800-45190000	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
25	chr1:45188800-45190000	Flanking Active TSS	GM12878-XiMat	blood
26	chr1:45188800-45190200	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
27	chr1:45188800-45190200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
28	chr1:45188800-45190200	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
29	chr1:45188800-45190600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
30	chr1:45188800-45190800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
31	chr1:45188800-45190800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
32	chr1:45188800-45190800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr1:45189000-45190000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
34	chr1:45189000-45190000	Flanking Active TSS	Fetal Thymus	thymus
35	chr1:45189000-45191200	Enhancers	Spleen	Spleen
36	chr1:45189400-45190000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
37	chr1:45189400-45190400	Active TSS	Thymus	Thymus
38	chr1:45189400-45190800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr1:45189400-45192000	Weak transcription	K562	blood
40	chr1:45189400-45196200	Weak transcription	Brain Germinal Matrix	brain
41	chr1:45189400-45196200	Weak transcription	Colonic Mucosa	Colon
42	chr1:45189600-45191200	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr1:45189600-45192400	Weak transcription	Placenta	Placenta
44	chr1:45189600-45195000	Weak transcription	Rectal Smooth Muscle	rectum
45	chr1:45189800-45190000	Enhancers	Primary B cells from peripheral blood	blood
46	chr1:45189800-45190000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr1:45189800-45190200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
48	chr1:45189800-45190400	Enhancers	Primary B cells from cord blood	blood
49	chr1:45189800-45190400	Weak transcription	Brain Hippocampus Middle	brain
50	chr1:45189800-45190600	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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