Variant report

Variant	rs17029878
Chromosome Location	chr2:98317665-98317666
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

No data

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:98313545..98315394-chr2:98316624..98319251,2	MCF-7	breast:
2	chr2:98317619..98320456-chr2:98324086..98325839,2	MCF-7	breast:
3	chr2:98279781..98283604-chr2:98316851..98320618,5	K562	blood:
4	chr2:98277866..98283604-chr2:98316329..98321534,8	K562	blood:
5	chr2:98317266..98319874-chr2:98357687..98360540,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZAP70-2	chr2:98317617-98317787	ENSG00000228486.2
2	lnc-ZAP70-2	chr2:98317617-98317767	ENSG00000228486.2
3	lnc-ZAP70-2	chr2:98317617-98317767	ENSG00000228486.5
4	lnc-ZAP70-2	chr2:98317617-98317767	ENSG00000228486.5
5	lnc-ZAP70-2	chr2:98317617-98317767	ENSG00000228486.5
6	lnc-ZAP70-2	chr2:98317617-98317767	ENSG00000228486.5
7	lnc-ZAP70-2	chr2:98317617-98317674	ENSG00000228486.5
8	lnc-ZAP70-2	chr2:98317617-98317674	ENSG00000228486.5
9	lnc-ZAP70-2	chr2:98317617-98317767	ENSG00000228486.5
10	lnc-ZAP70-2	chr2:98317617-98317767	ENSG00000228486.5
11	lnc-ZAP70-2	chr2:98317617-98317760	ENSG00000228486.5
12	lnc-ZAP70-2	chr2:98317617-98317767	ENSG00000228486.5
13	lnc-ZAP70-2	chr2:98317617-98317767	ENSG00000228486.5
14	lnc-ZAP70-2	chr2:98317617-98317767	NR_038386

No data

No data

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs17028435	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs17028568	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs17028640	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs17028771	0.89[YRI][hapmap];0.82[AFR][1000 genomes]
rs17028924	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs55757705	0.92[AFR][1000 genomes]
rs55766309	0.85[AFR][1000 genomes]
rs56717024	0.82[AFR][1000 genomes]
rs57183691	0.93[AFR][1000 genomes]
rs57875000	0.84[AFR][1000 genomes]
rs58383658	0.84[AFR][1000 genomes]
rs58753916	0.86[AFR][1000 genomes]
rs73959772	1.00[AFR][1000 genomes]
rs9678135	1.00[YRI][hapmap];1.00[AFR][1000 genomes]

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	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
4	nsv874696	chr2:98309882-98362907	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	esv33510	chr2:98317103-98341302	Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:98281000-98323800	Weak transcription	Gastric	stomach
2	chr2:98292200-98317800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr2:98306000-98322400	Weak transcription	Fetal Stomach	stomach
4	chr2:98309400-98317800	Weak transcription	HSMM	muscle
5	chr2:98312800-98324600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr2:98313800-98318000	Weak transcription	NHDF-Ad	bronchial
7	chr2:98313800-98318200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr2:98313800-98318400	Weak transcription	GM12878-XiMat	blood
9	chr2:98314000-98318200	Weak transcription	Osteobl	bone
10	chr2:98316400-98324000	Weak transcription	Pancreas	Pancrea
11	chr2:98316600-98319200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr2:98316800-98319200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr2:98317400-98317800	Weak transcription	Fetal Muscle Leg	muscle
14	chr2:98317600-98318600	Enhancers	Fetal Muscle Trunk	muscle
15	chr2:98317600-98318600	Active TSS	Spleen	Spleen
16	chr2:98317600-98319600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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