Variant report

Variant	rs55844458
Chromosome Location	chr3:24306497-24306498
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:17)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:24305304..24306760-chr3:24623707..24624748,5	MCF-7	breast:
2	chr3:24304507..24306976-chr3:24398262..24401260,2	MCF-7	breast:
3	chr3:24305746..24306763-chr3:24537733..24538685,3	MCF-7	breast:
4	chr3:24049320..24050973-chr3:24303692..24306625,2	K562	blood:
5	chr3:24305546..24307619-chr3:24343999..24346600,2	MCF-7	breast:
6	chr3:24305947..24306863-chr3:24537889..24538429,2	MCF-7	breast:
7	chr3:24305905..24306801-chr3:24537491..24538283,2	K562	blood:
8	chr3:24303622..24310321-chr3:24533981..24541253,19	MCF-7	breast:
9	chr3:24305621..24308372-chr3:24314750..24317719,2	K562	blood:
10	chr17:59493988..59494767-chr3:24306189..24306755,2	MCF-7	breast:
11	chr3:24305596..24307842-chr3:24555614..24558189,2	K562	blood:
12	chr3:24299984..24301754-chr3:24305650..24307661,2	K562	blood:
13	chr3:24305072..24307020-chr3:24526305..24529102,2	K562	blood:
14	chr3:24305982..24306914-chr3:24681528..24682464,3	MCF-7	breast:
15	chr3:24305923..24306824-chr3:24401700..24402457,2	MCF-7	breast:
16	chr3:24305875..24306747-chr3:24681516..24682374,2	K562	blood:
17	chr3:24305879..24306714-chr3:24400956..24401773,2	MCF-7	breast:

No data

No data

No data

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs10510542	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1077635	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1562734	1.00[AFR][1000 genomes]
rs60849349	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

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	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv876626	chr3:24281488-24327131	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv527561	chr3:24285768-24313506	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24297200-24335000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:24302200-24313800	Weak transcription	Stomach Mucosa	stomach
3	chr3:24302600-24310800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:24302600-24312000	Weak transcription	Aorta	Aorta
5	chr3:24302800-24307800	Weak transcription	Psoas Muscle	Psoas
6	chr3:24304000-24310800	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr3:24305600-24310400	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr3:24305600-24312200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr3:24305800-24306800	Enhancers	Colon Smooth Muscle	Colon
10	chr3:24306000-24306800	Enhancers	Fetal Intestine Small	intestine
11	chr3:24306400-24306600	Enhancers	Brain Inferior Temporal Lobe	brain
12	chr3:24306400-24306600	Enhancers	A549	lung
13	chr3:24306400-24306800	Enhancers	HepG2	liver

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Input of quick search could be:

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

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