Variant report

Variant	rs537985968
Chromosome Location	chr5:59944940-59944941
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr5:59944940-59945611	HCT-116	colon:	n/a	chr5:59945316-59945337 chr5:59945323-59945336
2	CTCF	chr5:59944820-59944970	HRPEpiC	eye:	n/a	n/a
3	CTCF	chr5:59944900-59945050	BJ	skin:	n/a	n/a
4	CTCF	chr5:59944874-59946061	A549	lung:	n/a	chr5:59945316-59945337 chr5:59945323-59945336
5	SMC3	chr5:59944704-59945653	SK-N-SH	brain:	n/a	n/a
6	RAD21	chr5:59944927-59945710	SK-N-SH	brain:	n/a	chr5:59945327-59945339 chr5:59945319-59945338

No.	Distal block	Cell Line	Cell type
1	chr5:59944857..59945693-chr5:59972891..59974305,6	MCF-7	breast:
2	chr5:59105772..59106332-chr5:59944917..59945827,2	MCF-7	breast:
3	chr5:59589888..59590741-chr5:59944874..59945467,2	MCF-7	breast:

Variant related genes	Relation type
DEPDC1B	TF binding region

Extended variants
information (count: 3 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv598288	chr5:59627555-60003460	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
2	nsv492277	chr5:59905195-60180834	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv968916	chr5:59944877-59962647	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59920600-59947800	Weak transcription	HUVEC	blood vessel
2	chr5:59925200-59947200	Weak transcription	Pancreas	Pancrea
3	chr5:59926400-59967800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr5:59926600-59946200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr5:59929400-59947400	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr5:59929400-59954600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr5:59929600-59948000	Weak transcription	NHEK	skin
8	chr5:59933400-59965200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr5:59933600-59981000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr5:59934800-59947600	Weak transcription	HMEC	breast
11	chr5:59936600-59961400	Weak transcription	Thymus	Thymus
12	chr5:59936800-59961800	Weak transcription	Fetal Thymus	thymus
13	chr5:59937000-59945800	Weak transcription	GM12878-XiMat	blood
14	chr5:59938600-59945200	Weak transcription	Fetal Kidney	kidney
15	chr5:59940400-59947800	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr5:59940400-59947800	Weak transcription	HSMM	muscle
17	chr5:59940600-59945000	Weak transcription	Fetal Intestine Large	intestine
18	chr5:59940600-59947400	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr5:59940600-59947600	Weak transcription	A549	lung
20	chr5:59940600-59948000	Weak transcription	K562	blood
21	chr5:59940600-59950200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr5:59941000-59947200	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr5:59941200-59946600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr5:59941200-59947600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr5:59942200-59945400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr5:59942600-59947400	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr5:59942800-59952000	Weak transcription	Dnd41	blood
28	chr5:59942800-59961600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr5:59943400-59947600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr5:59943400-59947800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr5:59943400-59952400	Weak transcription	Placenta	Placenta
32	chr5:59943400-59977000	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr5:59943600-59945000	Enhancers	HepG2	liver
34	chr5:59943800-59945400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr5:59943800-59952600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr5:59944400-59952400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links