Variant report

Variant	rs575990148
Chromosome Location	chr1:78469742-78469743
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:252)
CpG islands
(count:0)
Chromatin interactive
region (count:37)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:252 , 50 per page) page: 1 2 3 4 5 6

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr1:78468615-78470834	K562	blood:	n/a	chr1:78469262-78469276
2	POLR2A	chr1:78469623-78470998	Hela-S3	cervix:	n/a	n/a
3	BCLAF1	chr1:78469639-78470760	GM12878	blood:	n/a	n/a
4	ELK1	chr1:78469105-78470507	K562	blood:	n/a	n/a
5	POLR2A	chr1:78469699-78470355	SK-N-SH	brain:	n/a	n/a
6	CUX1	chr1:78469667-78470884	GM12878	blood:	n/a	n/a
7	CUX1	chr1:78469723-78471430	K562	blood:	n/a	n/a
8	TEAD4	chr1:78469704-78470713	HepG2	liver:	n/a	n/a
9	CEBPD	chr1:78469696-78470030	HepG2	liver:	n/a	n/a
10	TEAD4	chr1:78469579-78471022	K562	blood:	n/a	n/a
11	ATF2	chr1:78469560-78471024	GM12878	blood:	n/a	n/a
12	POLR2A	chr1:78469594-78470926	GM18951	blood:	n/a	n/a
13	SRF	chr1:78469691-78470967	HCT-116	colon:	n/a	n/a
14	CBX3	chr1:78469700-78470848	HCT-116	colon:	n/a	n/a
15	ZMIZ1	chr1:78469600-78470842	K562	blood:	n/a	n/a
16	HEY1	chr1:78469606-78470943	K562	blood:	n/a	n/a
17	FOXM1	chr1:78469555-78470731	GM12878	blood:	n/a	n/a
18	SP1	chr1:78469662-78470423	K562	blood:	n/a	n/a
19	MAX	chr1:78469553-78470923	HCT-116	colon:	n/a	n/a
20	POLR2A	chr1:78469609-78470900	HCT-116	colon:	n/a	n/a
21	MAFK	chr1:78468708-78470928	K562	blood:	n/a	chr1:78469158-78469172 chr1:78469157-78469173 chr1:78469162-78469171 chr1:78469155-78469175 chr1:78469154-78469169 chr1:78469159-78469168 chr1:78469155-78469166
22	POLR2A	chr1:78469580-78470939	GM12891	blood:	n/a	n/a
23	MEF2A	chr1:78469621-78470367	K562	blood:	n/a	chr1:78469831-78469852 chr1:78469831-78469852 chr1:78469838-78469847
24	TAF1	chr1:78469742-78470760	K562	blood:	n/a	n/a
25	ZBTB33	chr1:78469700-78470238	GM12878	blood:	n/a	n/a
26	POU2F2	chr1:78469612-78470836	GM12878	blood:	n/a	chr1:78469866-78469878
27	BCL3	chr1:78469490-78470767	K562	blood:	n/a	n/a
28	JUND	chr1:78469623-78470892	HCT-116	colon:	n/a	n/a
29	POLR2A	chr1:78469196-78471142	K562	blood:	n/a	n/a
30	POLR2A	chr1:78469633-78470832	GM12878	blood:	n/a	n/a
31	BRCA1	chr1:78469666-78470786	Hela-S3	cervix:	n/a	n/a
32	SP1	chr1:78469608-78470032	H1-hESC	embryonic stem cell:	n/a	n/a
33	MAZ	chr1:78469682-78470895	K562	blood:	n/a	n/a
34	POLR2A	chr1:78469572-78470923	SK-N-MC	brain:	n/a	n/a
35	MEF2C	chr1:78469558-78470566	GM12878	blood:	n/a	chr1:78469831-78469852 chr1:78469831-78469852 chr1:78470405-78470413 chr1:78469838-78469847
36	ZNF143	chr1:78469193-78470824	K562	blood:	n/a	chr1:78469862-78469880
37	STAT3	chr1:78469555-78471035	Hela-S3	cervix:	n/a	chr1:78470132-78470140
38	EP300	chr1:78468865-78471212	GM12878	blood:	n/a	chr1:78469262-78469276
39	POLR2A	chr1:78469593-78470848	GM18526	blood:	n/a	n/a
40	POLR2A	chr1:78469706-78469874	H1-hESC	embryonic stem cell:	n/a	n/a
41	RCOR1	chr1:78469738-78470691	HepG2	liver:	n/a	n/a
42	FOXA2	chr1:78469655-78469919	HepG2	liver:	n/a	n/a
43	NFATC1	chr1:78469482-78470740	GM12878	blood:	n/a	n/a
44	CBX3	chr1:78469651-78470722	K562	blood:	n/a	n/a
45	CEBPD	chr1:78469638-78470831	K562	blood:	n/a	n/a
46	BCL3	chr1:78469742-78470355	GM12878	blood:	n/a	n/a
47	TBP	chr1:78469712-78470645	H1-hESC	embryonic stem cell:	n/a	n/a
48	POLR2A	chr1:78469647-78470370	GM12878	blood:	n/a	n/a
49	TCF12	chr1:78469719-78470867	A549	lung:	n/a	n/a
50	POLR2A	chr1:78469640-78470395	GM12891	blood:	n/a	n/a

No data

(count:37 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:78222274..78226935-chr1:78467368..78471641,7	K562	blood:
2	chr1:77813619..77816574-chr1:78468319..78470340,2	K562	blood:
3	chr1:45195514..45197967-chr1:78468300..78470449,2	K562	blood:
4	chr1:78469181..78471632-chr1:85154975..85157700,2	K562	blood:
5	chr1:78468129..78475881-chr1:78555411..78565499,18	K562	blood:
6	chr1:78469483..78470465-chr1:159894832..159895503,2	Hela-S3	cervix:
7	chr1:78468848..78471469-chr13:91999787..92002475,2	K562	blood:
8	chr1:78354412..78357543-chr1:78468778..78471529,4	K562	blood:
9	chr1:78468665..78470165-chr1:80026349..80029039,2	K562	blood:
10	chr1:78147072..78148946-chr1:78468394..78471551,4	K562	blood:
11	chr1:78223538..78227787-chr1:78468626..78471641,9	K562	blood:
12	chr1:78215243..78217892-chr1:78468395..78470149,2	K562	blood:
13	chr1:78391278..78394159-chr1:78467798..78470228,4	K562	blood:
14	chr1:78469701..78470650-chr4:10118290..10119096,2	NB4	blood:
15	chr1:78467305..78472459-chr1:78554681..78560615,12	K562	blood:
16	chr1:78469677..78470230-chr4:99850265..99850940,3	Hela-S3	cervix:
17	chr1:78469050..78471034-chr12:6647228..6648916,2	K562	blood:
18	chr1:78148235..78150616-chr1:78467949..78471468,6	K562	blood:
19	chr1:78468722..78470321-chr1:110881687..110883282,2	K562	blood:
20	chr1:78466099..78472038-chr1:78511575..78517585,8	K562	blood:
21	chr1:78469679..78470448-chr11:62608476..62609646,4	Hela-S3	cervix:
22	chr1:78469253..78470162-chr13:97874132..97874961,2	Hela-S3	cervix:
23	chr1:78469306..78470017-chr6:2841690..2842326,2	Hela-S3	cervix:
24	chr1:78441900..78447727-chr1:78466477..78473207,15	MCF-7	breast:
25	chr1:78469598..78470450-chr15:66648596..66649216,2	Hela-S3	cervix:
26	chr1:67895339..67897749-chr1:78469184..78471380,2	K562	blood:
27	chr1:78444790..78445968-chr1:78469428..78470562,4	Hela-S3	cervix:
28	chr1:78469578..78470998-chr12:52444680..52445780,5	Hela-S3	cervix:
29	chr1:78148970..78151388-chr1:78468544..78472172,4	K562	blood:
30	chr1:78391278..78393665-chr1:78467798..78470228,3	K562	blood:
31	chr1:78468395..78470223-chr1:78565706..78567712,2	K562	blood:
32	chr1:78194511..78196220-chr1:78468665..78470167,2	K562	blood:
33	chr1:78441980..78446801-chr1:78467462..78471771,12	MCF-7	breast:
34	chr1:78469721..78470513-chr12:49524722..49525238,2	NB4	blood:
35	chr1:78469665..78470320-chr22:43410838..43411749,2	Hela-S3	cervix:
36	chr1:78245266..78247421-chr1:78469203..78472150,2	K562	blood:
37	chr1:76251016..76253217-chr1:78469296..78471512,3	K562	blood:

No data

Variant related genes	Relation type
DNAJB4	TF binding region
ENSG00000162775	Chromatin interaction
ENSG00000142864	Chromatin interaction
ENSG00000233099	Chromatin interaction
ENSG00000227963	Chromatin interaction
ENSG00000117155	Chromatin interaction
ENSG00000251958	Chromatin interaction
ENSG00000162616	Chromatin interaction
ENSG00000075131	Chromatin interaction
ENSG00000071127	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000215417	Chromatin interaction
ENSG00000151247	Chromatin interaction
ENSG00000162613	Chromatin interaction
ENSG00000200169	Chromatin interaction
ENSG00000235927	Chromatin interaction
ENSG00000137955	Chromatin interaction
ENSG00000036549	Chromatin interaction
ENSG00000137960	Chromatin interaction
ENSG00000202263	Chromatin interaction
ENSG00000123416	Chromatin interaction
ENSG00000139793	Chromatin interaction
ENSG00000213560	Chromatin interaction
ENSG00000123358	Chromatin interaction
ENSG00000206620	Chromatin interaction
ENSG00000180488	Chromatin interaction
ENSG00000077254	Chromatin interaction
ENSG00000162614	Chromatin interaction
ENSG00000269968	Chromatin interaction
ENSG00000158710	Chromatin interaction
ENSG00000222849	Chromatin interaction
ENSG00000021355	Chromatin interaction
ENSG00000100266	Chromatin interaction
ENSG00000258017	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1794082	chr1:78102426-78492221	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	108 gene(s)	inside rSNPs	diseases
2	esv3434340	chr1:78153780-78607103	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
3	nsv1013008	chr1:78463173-78958701	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
4	nsv535012	chr1:78463173-78958701	Enhancers Genic enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
5	esv1801396	chr1:78468094-78492221	Enhancers Flanking Active TSS Active TSS Weak transcription 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	58 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:78446400-78469800	Weak transcription	Primary B cells from peripheral blood	blood
2	chr1:78446400-78470200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr1:78446600-78469800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr1:78446600-78470200	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr1:78446600-78470400	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr1:78447600-78469800	Weak transcription	Brain Cingulate Gyrus	brain
7	chr1:78447600-78470200	Weak transcription	Fetal Brain Male	brain
8	chr1:78448800-78488200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr1:78452800-78470400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr1:78452800-78478800	Weak transcription	Spleen	Spleen
11	chr1:78454200-78469800	Weak transcription	Left Ventricle	heart
12	chr1:78454200-78469800	Weak transcription	Psoas Muscle	Psoas
13	chr1:78454200-78485600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr1:78454400-78469800	Weak transcription	Right Ventricle	heart
15	chr1:78456200-78470400	Weak transcription	Esophagus	oesophagus
16	chr1:78457400-78469800	Weak transcription	Ovary	ovary
17	chr1:78457400-78470400	Weak transcription	Pancreas	Pancrea
18	chr1:78459400-78469800	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr1:78460000-78469800	Weak transcription	Fetal Thymus	thymus
20	chr1:78460200-78470200	Weak transcription	Brain Germinal Matrix	brain
21	chr1:78461400-78470000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr1:78461400-78470800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr1:78461600-78469800	Weak transcription	Fetal Muscle Leg	muscle
24	chr1:78461600-78470000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr1:78461800-78469800	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr1:78462000-78469800	Weak transcription	Fetal Muscle Trunk	muscle
27	chr1:78462600-78470200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr1:78466400-78469800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr1:78467000-78469800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr1:78468200-78473600	Active TSS	A549	lung
31	chr1:78468400-78469800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr1:78468400-78469800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr1:78468400-78469800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr1:78468400-78469800	Enhancers	Hela-S3	cervix
35	chr1:78468400-78469800	Flanking Active TSS	HUVEC	blood vessel
36	chr1:78468400-78475800	Active TSS	Right Atrium	heart
37	chr1:78468600-78470000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr1:78468600-78473400	Active TSS	Brain Inferior Temporal Lobe	brain
39	chr1:78468600-78475000	Active TSS	K562	blood
40	chr1:78468800-78469800	Flanking Active TSS	Dnd41	blood
41	chr1:78468800-78469800	Enhancers	NH-A	brain
42	chr1:78468800-78469800	Enhancers	NHEK	skin
43	chr1:78468800-78470000	Enhancers	HepG2	liver
44	chr1:78468800-78470000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
45	chr1:78468800-78470200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr1:78469000-78469800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr1:78469000-78469800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
48	chr1:78469000-78469800	Enhancers	Fetal Heart	heart
49	chr1:78469000-78469800	Enhancers	Fetal Kidney	kidney
50	chr1:78469000-78470000	Enhancers	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links