Gene loci information

Transcript annotation

  • This transcript has been annotated as Myotubularin-related protein 3.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_3 g3834 g3834.t4 TSS g3834.t4 28291517 28291517
chr_3 g3834 g3834.t4 isoform g3834.t4 28291665 28294664
chr_3 g3834 g3834.t4 exon g3834.t4.exon1 28291665 28291676
chr_3 g3834 g3834.t4 cds g3834.t4.CDS1 28291665 28291676
chr_3 g3834 g3834.t4 exon g3834.t4.exon2 28292107 28292263
chr_3 g3834 g3834.t4 cds g3834.t4.CDS2 28292107 28292263
chr_3 g3834 g3834.t4 exon g3834.t4.exon3 28292332 28293429
chr_3 g3834 g3834.t4 cds g3834.t4.CDS3 28292332 28293429
chr_3 g3834 g3834.t4 exon g3834.t4.exon4 28293535 28293632
chr_3 g3834 g3834.t4 cds g3834.t4.CDS4 28293535 28293632
chr_3 g3834 g3834.t4 exon g3834.t4.exon5 28293690 28294664
chr_3 g3834 g3834.t4 cds g3834.t4.CDS5 28293690 28294664
chr_3 g3834 g3834.t4 TTS g3834.t4 NA NA

Sequences

>g3834.t4 Gene=g3834 Length=2340
ATGGTTAAAGAAGTATTCGGAGAAGAACTTATAGAAGAAGAACATCAACAGCAACAAGCT
GAAGATATGCCTTCTTCTTCATATATGATAAAAATTAAGGCAACAGAGCTATTTCCCAAA
GAAAAAGTAGAAAAAGAAGATGACAGCTTGCAAATTCCGTTTGCTGAGCTGTCTGGTGAA
TTCGTAAAATATATTGGAAGATATGACAGTGGGATCTTGGCAATATCAAATTATCGTTTA
TATTTATCAAACTCAACAAAGTCTTTTGAGACCTCAATACCATTGCGTCTTATCGAAAAT
GTTTCAATTAAGGAGATGTTTCAGTTAGTGATTAGTTGCAAAGATGCATGTACACATGTC
TGCTCATTTTCAACAAACGAATTATGCAACGACTGGCACTCAAGAATTAGTGCTGCCACT
AGTGTTCCCGATCAACTCGAGAATCTTTTTGCTTTTGCATTTTACGCTTGGGAATCTGAA
AAGGAGTCATCACATGATCACGAATCAAATCGTTTGAAACATGCAATTAGTTATGATGTT
CACTTTAAAGAAGAACTTGACCGATTAAAATTTGATTTAAAAGGGGCATGGCGAGTTTCC
AATATCAATTCAGATTTCAAGCTTTGTTCATCTTATCCGAAACAACTTATTGTACCTGCA
TGTATTTCTGATGAAACACTCGCAGCTGTTGCAAATTTTCGTAGTTCAAAACGCATTCCC
ATTGTTACTTATCGACATCCATCTGGAGCTGTTATTGCAAGGTCTTCGCAACCTGAGGTC
GGCTGGCTTGGCTGGCGCAACAATAAAGATGAACAGCTTCTGAAAGCTCTTGCTGATGCT
TGCTCATTTGATAATGGGAAAATAAATTCGTCATCATTGCCAACTAAAGTCGAAAGTGAT
AGTGACCATTCTCTCGATACTTCAAATCCTGAAAAAGTAGATCTTGAGACACCTAAGAAA
ATTTTAATTATTGATGCACGAAGTTATGCATCAGCAGTAACAAATAGAGCTCGAGGAGGC
GGCGTTGAATGTGCAGAATACTATCCCAATGCTGAAATTGAGTTCATGAATTTGGGAAAT
ATTCATGTTATTCGAAAGTCATTTCAAAGTTTACGACAACTCTGTATTGATGCTGATATT
CCAAATTGGTTTAGTTTACTTGAGAAAACTAACTGGTTGCAGCATATTTCGGGTCTATTA
TCCGCTGCCAATATTGTTGTTCATGCAATAGAGAAAAATAATCGGCCCGTTCTTGTACAT
TGTTCAGATGGGTGGGATCGTACTTCGCAAATTTCTAGTATATCGCAATTGCTGCTTGAT
CCGTATTATAGAACTATGGAAGGATTTATGGTTTTAGTTGAAAAGGAATGGTTGGCATTT
GGCCACAAATTCGGTGATAGAGTTGGACACGGAGTTGGTAGTGATGATACAAATGAACGT
TGTCCAGTTTTTCTTCAATGGATTGACTGCGTATATCAGATTCATAATCAATTTCCTTGT
AGTTTTGAGTTTACAACATCATACCTCATTAAACTAGCTCAGCACGTGCACTCTTGCTTA
TTTGGCACATTTTTGTGCAACACTCTTAAAGAAAGAATTGAAAATTTCATTAACGAACGT
ACATTTTCCGTGTGGCCTTTCTTATCTACGCCCATTTACAAAAATCCTCTATATCAAACT
ACTCTTGACAAAGTCTTGTGGCCGTCGCATAGAATAAGTTCGCTGGTATTTTGGAGAGAA
TTATATGGTGGAAGTTTTCATACACCACATTCAAATGGAAATGATAATTTAAAGATATCG
AGTGATACGATCTATACTGAGACTGGTCTCATTAAAACGAGAAGTTTTGACGATTTAGTT
TCAGAAATTAAAAGCAGTAAAGATTCAGTGAGAAGACTTAGTGATCCCTCAGTATTTGCA
GATAGCAACACTATCTCAATGAGAGTTAGCATTTTGTCATGTGACAGTGGAACAAGCAAT
GGTCATAATGATGACATTAATAATCAGGAAAAAGGAATTAAAACCAATATTAATAATCAT
ATATTGCCGTTATGCACTAATAATAATAATCATATTATCAATAATCACAATAATGGTGAC
ATAAACATTGATGAACTCGCTAATAACGAGCAATCAACTACAGCAAAAGAAGAGATGATG
ATACAAACAAATCTCGATGTGAAAATTCCTGAGTGTACTATTGTTGAGCACCAAAAAAAT
AATGAAGAAAAAAAAGAAATAAAACGAGGAGTTGAAAAAGAAGACGAAAACAATCATGAA
GGTCAAGAACAAATTGCCGATGATGATTTAAATAACAAAGATGAGATTGATGGGCATAAA

>g3834.t4 Gene=g3834 Length=780
MVKEVFGEELIEEEHQQQQAEDMPSSSYMIKIKATELFPKEKVEKEDDSLQIPFAELSGE
FVKYIGRYDSGILAISNYRLYLSNSTKSFETSIPLRLIENVSIKEMFQLVISCKDACTHV
CSFSTNELCNDWHSRISAATSVPDQLENLFAFAFYAWESEKESSHDHESNRLKHAISYDV
HFKEELDRLKFDLKGAWRVSNINSDFKLCSSYPKQLIVPACISDETLAAVANFRSSKRIP
IVTYRHPSGAVIARSSQPEVGWLGWRNNKDEQLLKALADACSFDNGKINSSSLPTKVESD
SDHSLDTSNPEKVDLETPKKILIIDARSYASAVTNRARGGGVECAEYYPNAEIEFMNLGN
IHVIRKSFQSLRQLCIDADIPNWFSLLEKTNWLQHISGLLSAANIVVHAIEKNNRPVLVH
CSDGWDRTSQISSISQLLLDPYYRTMEGFMVLVEKEWLAFGHKFGDRVGHGVGSDDTNER
CPVFLQWIDCVYQIHNQFPCSFEFTTSYLIKLAQHVHSCLFGTFLCNTLKERIENFINER
TFSVWPFLSTPIYKNPLYQTTLDKVLWPSHRISSLVFWRELYGGSFHTPHSNGNDNLKIS
SDTIYTETGLIKTRSFDDLVSEIKSSKDSVRRLSDPSVFADSNTISMRVSILSCDSGTSN
GHNDDINNQEKGIKTNINNHILPLCTNNNNHIINNHNNGDINIDELANNEQSTTAKEEMM
IQTNLDVKIPECTIVEHQKNNEEKKEIKRGVEKEDENNHEGQEQIADDDLNNKDEIDGHK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3834.t4 Coils Coil Coil 734 754 -
9 g3834.t4 MobiDBLite mobidb-lite consensus disorder prediction 739 780 -
2 g3834.t4 PANTHER PTHR10807:SF75 LD11744P 16 761 6.9E-267
3 g3834.t4 PANTHER PTHR10807 MYOTUBULARIN-RELATED 16 761 6.9E-267
1 g3834.t4 Pfam PF06602 Myotubularin-like phosphatase domain 171 532 1.5E-135
7 g3834.t4 ProSitePatterns PS00383 Tyrosine specific protein phosphatases active site. 419 429 -
10 g3834.t4 ProSiteProfiles PS51339 Myotubularin phosphatase domain. 176 582 117.635
8 g3834.t4 SMART SM00404 ptp_7 385 517 0.0072
4 g3834.t4 SUPERFAMILY SSF50729 PH domain-like 62 153 2.53E-9
5 g3834.t4 SUPERFAMILY SSF52799 (Phosphotyrosine protein) phosphatases II 179 583 7.75E-139

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016311 dephosphorylation BP
GO:0004725 protein tyrosine phosphatase activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed