PTPRF

NameSynonymsFull NameRefSeq IDDescription (.pdf)IGV-img (humangenome)Sashimi-img (humangenome)UCSC-img (humangenome)IGV-img (batgenome)
PTPRF LAR protein tyrosine phosphatase, receptor type, F pdf

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Description

The protein encoded by this gene is a member of the protein tyrosinephosphatase (PTP) family. PTPs are known to be signaling molecules thatregulate a variety of cellular processes including cell growth,differentiation, mitotic cycle, and oncogenic transformation. This PTPpossesses an extracellular region, a single transmembrane region, and twotandem intracytoplasmic catalytic domains, and thus represents areceptor-type PTP. The extracellular region contains three Ig-like domains,and nine non-Ig like domains similar to that of neural-cell adhesionmolecule. This PTP was shown to function in the regulation of epithelialcell-cell contacts at adherents junctions, as well as in the control ofbeta-catenin signaling. An increased expression level of this protein wasfound in the insulin-responsive tissue of obese, insulin-resistantindividuals, and may contribute to the pathogenesis of insulin resistance.Two alternatively spliced transcript variants of this gene, which encodedistinct proteins, have been reported.

The gene shows a really interesting differential expression and differentsplicing patterns for different states. PTPRF is upregulated after Ebolainfection in human cells, whereas the expression does not change in bat cells. In contrastMarburg infection leads to an expression decrease in human cells and an 2-foldup-regulation in bat cells 23 h after infection. An undescribed splice variantis observed only in human cells 23 h after infection with Ebola. In addition,the last exons show a diverse splicing pattern in different conditions.

Tyrosine phosphorylation during Ebola virus infection on VP40 can beperformed by c-ABl1 tyrosine kinase and is important for viral life cycle.Furthermore, reduced levels of protein tyrosine phosphatase CD45 protectmice from lethal effects of Ebola virus infection. Thus, events involved intyrosine phosphorylation of Ebola virus proteins seem to beimportant~\citegarcia2012,panchal2009.

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Maximum read counts and DESeq normalized read counts for human and bat cell lines

Source Species Mapping on Mock3h Mock7h Mock23h EBOV3h EBOV7h EBOV23h MARV3h MARV7h MARV23h
Read_Max
humanH. sapiensGenome399 377 283 361 522 877 476 536 280
Read_Max
batR. aegyptiacusTranscriptome 185 147 128 160 109 194 133 125 223
Read_Max
bat_genomeR. aegyptiacusGenome 175 119 128 118 103 121 97 153 260
DESeq
humanH. sapiensGenome 16412.13 14702.47 12099.56 16319.61 13958.55 30006.66 16354.73 15051.17 12082.51
DESeq
batR. aegyptiacusTranscriptome 3549.75 3477.45 4382.65 3353.26 3493.24 4389.48 3186.93 2991.05 4712.18
DESeq
bat_genomeR. aegyptiacusGenome 4674.22 4344.38 5453.92 4834.72 4717.9 5789.49 4324.95 3867.99 6090.09

Human Condition Comparisons

human Mock EBOV MARV FCMock_EBOV FCMock_MARV FCEBOV_MARV
3h 16412.13 16319.61 16354.73 -0.01 -0.01 0.0
7h 14702.47 13958.55 15051.17 -0.07 0.03 0.11
23h 12099.56 30006.66 12082.51 1.31 -0.0 -1.31

Human Time Point Comparisons

human 3h 7h 23h FC3h_7h FC3h_23h FC7h_23h
Mock 16412.13 14702.47 12099.56 -0.16 -0.44 -0.28
Ebov 16319.61 13958.55 30006.66 -0.23 0.88 1.1
Marv 16354.73 15051.17 12082.51 -0.12 -0.44 -0.32

Bat Condition Comparisons

bat Mock EBOV MARV FCMock_EBOV FCMock_MARV FCEBOV_MARV
3h 3549.75 3353.26 3186.93 -0.08 -0.16 -0.07
7h 3477.45 3493.24 2991.05 0.01 -0.22 -0.22
23h 4382.65 4389.48 4712.18 0.0 0.1 0.1

Bat Time Point Comparisons

bat 3h 7h 23h FC3h_7h FC3h_23h FC7h_23h
Mock 3549.75 3477.45 4382.65 -0.03 0.3 0.33
Ebov 3353.26 3493.24 4389.48 0.06 0.39 0.33
Marv 3186.93 2991.05 4712.18 -0.09 0.56 0.66