Variant report

Variant	rs541153458
Chromosome Location	chr2:98289866-98289867
allele	-/A
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:17)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:17 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAZ	chr2:98289648-98290809	K562	blood:	n/a	chr2:98290432-98290441
2	ATF1	chr2:98289774-98290894	K562	blood:	n/a	n/a
3	POLR2A	chr2:98289603-98290667	K562	blood:	n/a	n/a
4	MAX	chr2:98289605-98290405	K562	blood:	n/a	n/a
5	TBL1XR1	chr2:98289858-98290732	K562	blood:	n/a	n/a
6	UBTF	chr2:98289659-98290738	K562	blood:	n/a	n/a
7	POLR2A	chr2:98289675-98290632	K562	blood:	n/a	n/a
8	CBX3	chr2:98289713-98290370	K562	blood:	n/a	n/a
9	JUND	chr2:98289605-98290765	K562	blood:	n/a	chr2:98289770-98289781 chr2:98289771-98289780 chr2:98289773-98289780
10	CUX1	chr2:98289765-98290963	K562	blood:	n/a	n/a
11	RCOR1	chr2:98289690-98290801	K562	blood:	n/a	n/a
12	NR2F2	chr2:98289851-98290822	K562	blood:	n/a	n/a
13	BHLHE40	chr2:98289690-98290897	K562	blood:	n/a	n/a
14	MAX	chr2:98289707-98290601	K562	blood:	n/a	chr2:98290432-98290441
15	RCOR1	chr2:98289705-98290495	K562	blood:	n/a	n/a
16	ELF1	chr2:98289603-98289887	K562	blood:	n/a	chr2:98289697-98289710
17	TBL1XR1	chr2:98289664-98290516	K562	blood:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:98286306..98287909-chr2:98288768..98291732,2	MCF-7	breast:
2	chr2:98277787..98279697-chr2:98287927..98289913,2	MCF-7	breast:
3	chr2:98277540..98280673-chr2:98288354..98290107,4	K562	blood:
4	chr2:98261015..98264268-chr2:98289158..98291782,3	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZAP70-2	chr2:98289635-98292184	NONHSAT072675
2	lnc-ZAP70-2	chr2:98289635-98291020	NONHSAT072676

No data

Variant related genes	Relation type
LINC01125	TF binding region
ENSG00000228486	Chromatin interaction
ENSG00000115073	Chromatin interaction
ENSG00000135940	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	esv2757819	chr2:97571109-98336507	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
2	esv2759077	chr2:97571109-98336507	Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
3	esv1829350	chr2:98170405-98315611	Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv531382	chr2:98250628-98457616	Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	esv3451326	chr2:98289174-98304076	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	4 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	chr2:98281000-98290400	Weak transcription	Spleen	Spleen
2	chr2:98281000-98323800	Weak transcription	Gastric	stomach
3	chr2:98281400-98290000	Weak transcription	Left Ventricle	heart
4	chr2:98281400-98295200	Weak transcription	Esophagus	oesophagus
5	chr2:98281600-98290000	Weak transcription	Fetal Intestine Small	intestine
6	chr2:98281600-98290200	Weak transcription	Pancreas	Pancrea
7	chr2:98281600-98290400	Weak transcription	Thymus	Thymus
8	chr2:98281600-98291400	Weak transcription	Right Atrium	heart
9	chr2:98281600-98292000	Weak transcription	Adipose Nuclei	Adipose
10	chr2:98281600-98292800	Weak transcription	HSMM	muscle
11	chr2:98281600-98293200	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr2:98281600-98294800	Weak transcription	Brain Anterior Caudate	brain
13	chr2:98281600-98295400	Weak transcription	Right Ventricle	heart
14	chr2:98281600-98298800	Weak transcription	Aorta	Aorta
15	chr2:98281800-98293800	Weak transcription	Brain Angular Gyrus	brain
16	chr2:98281800-98296200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr2:98281800-98296200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr2:98282000-98290000	Weak transcription	Brain Hippocampus Middle	brain
19	chr2:98282000-98292000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr2:98282000-98293800	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr2:98285600-98292200	Weak transcription	Fetal Muscle Trunk	muscle
22	chr2:98286200-98292000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr2:98288600-98293600	Weak transcription	Fetal Muscle Leg	muscle
24	chr2:98289200-98290000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr2:98289200-98291600	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr2:98289200-98292000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr2:98289400-98290400	Enhancers	Primary neutrophils fromperipheralblood	blood
28	chr2:98289400-98292200	Enhancers	Primary hematopoietic stem cells	blood
29	chr2:98289600-98290000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr2:98289600-98290400	Enhancers	Fetal Thymus	thymus
31	chr2:98289600-98290400	Enhancers	Sigmoid Colon	Sigmoid Colon
32	chr2:98289600-98291600	Enhancers	GM12878-XiMat	blood
33	chr2:98289800-98290600	Enhancers	Rectal Mucosa Donor 31	rectum
34	chr2:98289800-98291000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr2:98289800-98291000	Flanking Active TSS	K562	blood
36	chr2:98289800-98293600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links