Variant report

Variant	rs5997829
Chromosome Location	chr22:31375105-31375106
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:14)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:5)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:14 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr22:31374373-31375252	HL-60	blood:	n/a	n/a
2	POLR2A	chr22:31374215-31375331	PFSK-1	brain:	n/a	n/a
3	POLR2A	chr22:31373318-31375235	HepG2	liver:	n/a	n/a
4	POLR2A	chr22:31372165-31375223	HepG2	liver:	n/a	n/a
5	POLR2A	chr22:31373114-31375372	GM12878	blood:	n/a	n/a
6	POLR2A	chr22:31373217-31377074	MCF10A-Er-Src	breast:	n/a	n/a
7	POLR2A	chr22:31375073-31375231	MCF-7	breast:	n/a	n/a
8	POLR2A	chr22:31375030-31375221	Hela-S3	cervix:	n/a	n/a
9	SETDB1	chr22:31371375-31375184	U2OS	brain:	n/a	n/a
10	POLR2A	chr22:31375008-31375151	H1-hESC	embryonic stem cell:	n/a	n/a
11	POLR2A	chr22:31375032-31375223	K562	blood:	n/a	n/a
12	POLR2A	chr22:31374501-31375198	A549	lung:	n/a	n/a
13	POLR2A	chr22:31368958-31378923	MCF10A-Er-Src	breast:	n/a	n/a
14	POLR2A	chr22:31369206-31376719	K562	blood:	n/a	n/a

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr22:31375047..31376571-chr22:31391886..31394125,2	MCF-7	breast:
2	chr22:31375006..31378537-chr22:31476924..31478681,3	MCF-7	breast:
3	chr22:31373202..31375614-chr22:31847172..31848695,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-OSBP2-2	chr22:31371156-31375337	XLOC_014209
2	lnc-OSBP2-2	chr22:31371156-31375327	XLOC_014209
3	lnc-OSBP2-2	chr22:31371156-31375377	XLOC_014209
4	lnc-OSBP2-2	chr22:31371199-31375261	NONHSAT084830
5	lnc-OSBP2-2	chr22:31371156-31375381	ENSG00000253352.4

No data

Variant related genes	Relation type
ENSG00000269972	TF binding region
ENSG00000269987	TF binding region
ENSG00000183963	Chromatin interaction
ENSG00000184708	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs12159317	1.00[AFR][1000 genomes]
rs12160446	1.00[AFR][1000 genomes]
rs12161052	1.00[AFR][1000 genomes]
rs5994359	1.00[AFR][1000 genomes]
rs5997826	1.00[AFR][1000 genomes]
rs5997827	1.00[AFR][1000 genomes]
rs5997831	1.00[AFR][1000 genomes]
rs5997834	1.00[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv9896	chr22:31369204-31513933	Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:31365800-31375200	ZNF genes & repeats	Fetal Brain Male	brain
2	chr22:31366200-31375800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr22:31366400-31375200	ZNF genes & repeats	Fetal Brain Female	brain
4	chr22:31366400-31376800	ZNF genes & repeats	Brain Germinal Matrix	brain
5	chr22:31366600-31375200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr22:31366600-31376400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
7	chr22:31366800-31380800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr22:31367000-31375200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
9	chr22:31367200-31376000	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
10	chr22:31367600-31375600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
11	chr22:31367600-31376000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
12	chr22:31371800-31375600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr22:31371800-31375800	Weak transcription	HepG2	liver
14	chr22:31371800-31376200	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr22:31372000-31376200	Weak transcription	NH-A	brain
16	chr22:31372600-31375400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr22:31372800-31376000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr22:31373000-31375800	Enhancers	Primary neutrophils fromperipheralblood	blood
19	chr22:31373000-31381800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr22:31373800-31375800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr22:31374000-31375800	Weak transcription	Osteobl	bone
22	chr22:31374200-31376000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr22:31374200-31376800	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr22:31374400-31384000	Weak transcription	HSMMtube	muscle
25	chr22:31374600-31376200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr22:31374600-31379200	Weak transcription	HSMM	muscle
27	chr22:31374800-31375600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr22:31374800-31375800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr22:31374800-31375800	Weak transcription	NHLF	lung
30	chr22:31374800-31376000	Weak transcription	Psoas Muscle	Psoas
31	chr22:31374800-31378000	Weak transcription	H1 Cell Line	embryonic stem cell
32	chr22:31375000-31377200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links