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.t2 TSS g3834.t2 28291517 28291517
chr_3 g3834 g3834.t2 isoform g3834.t2 28291665 28295674
chr_3 g3834 g3834.t2 exon g3834.t2.exon1 28291665 28291676
chr_3 g3834 g3834.t2 cds g3834.t2.CDS1 28291665 28291676
chr_3 g3834 g3834.t2 exon g3834.t2.exon2 28292107 28292263
chr_3 g3834 g3834.t2 cds g3834.t2.CDS2 28292107 28292263
chr_3 g3834 g3834.t2 exon g3834.t2.exon3 28292332 28293429
chr_3 g3834 g3834.t2 cds g3834.t2.CDS3 28292332 28293429
chr_3 g3834 g3834.t2 exon g3834.t2.exon4 28293535 28293632
chr_3 g3834 g3834.t2 cds g3834.t2.CDS4 28293535 28293632
chr_3 g3834 g3834.t2 exon g3834.t2.exon5 28293690 28294664
chr_3 g3834 g3834.t2 cds g3834.t2.CDS5 28293690 28294664
chr_3 g3834 g3834.t2 exon g3834.t2.exon6 28294730 28294818
chr_3 g3834 g3834.t2 cds g3834.t2.CDS6 28294730 28294818
chr_3 g3834 g3834.t2 exon g3834.t2.exon7 28294898 28295048
chr_3 g3834 g3834.t2 cds g3834.t2.CDS7 28294898 28295048
chr_3 g3834 g3834.t2 exon g3834.t2.exon8 28295109 28295237
chr_3 g3834 g3834.t2 cds g3834.t2.CDS8 28295109 28295237
chr_3 g3834 g3834.t2 exon g3834.t2.exon9 28295309 28295453
chr_3 g3834 g3834.t2 cds g3834.t2.CDS9 28295309 28295453
chr_3 g3834 g3834.t2 exon g3834.t2.exon10 28295514 28295674
chr_3 g3834 g3834.t2 cds g3834.t2.CDS10 28295514 28295674
chr_3 g3834 g3834.t2 TTS g3834.t2 28295766 28295766

Sequences

>g3834.t2 Gene=g3834 Length=3015
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
ATGATTGAAACAGTCGAGAATTTAGAGCAGCACTTCAAGAAGCTCAAGTCAAATTTTCAA
AATGGGCATTCAAAAAGTAAAAAAGAAAGCACATCATCAAATGATTCACAATTTTCAACG
CCAGTTTTACGCTCAATAACACCAGCAACGCTCGAAAAAACCATTTCTTCTGTGGATGGT
CTTTCATTTGCTCTAAGTCAGGAAAATTTGCGATTGCAACAGTTAGTTCATGAATATAAA
CTTAAAGAAGAGAAACTTTATTATGAACTGCTTGTAACAAGAAGAGCATTAGTGAATGCA
ACCTCATGTCAGTGTGGAAAAAACCAAAATAACCAAAGGGCTCATAGTGCAGCCACATCT
GAGGACCCACATCAAGAATATAATTCTGAAAATTCTGTTTGCTCATGGGAGGCAGTCGAT
GAAAAACCTAATGATGGCCACAACAATCATGTTCCATGGATTCCTGATTTTGCAAGGAGC
AAATGTAAAAATTGTCAAATTGAATTTTGGCTAGGAAGAAGACGGCATCATTGTCGACTT
TGTATGGAAATATTCTGTGCAGATTGCAGTGATCATTTTGCTCAGTTGCCAAATAATGAA
AACATTCAATGTCAATATCCTGTGCGATTGTGTGAGCCTTGCTTCAAATCTATCGTCGAG
AAAGAAACTAATTAA

>g3834.t2 Gene=g3834 Length=1004
MVKEVFGEELIEEEHQQQQAEDMPSSSYMIKIKATELFPKEKVEKEDDSLQIPFAELSGE
FVKYIGRYDSGILAISNYRLYLSNSTKSFETSIPLRLIENVSIKEMFQLVISCKDACTHV
CSFSTNELCNDWHSRISAATSVPDQLENLFAFAFYAWESEKESSHDHESNRLKHAISYDV
HFKEELDRLKFDLKGAWRVSNINSDFKLCSSYPKQLIVPACISDETLAAVANFRSSKRIP
IVTYRHPSGAVIARSSQPEVGWLGWRNNKDEQLLKALADACSFDNGKINSSSLPTKVESD
SDHSLDTSNPEKVDLETPKKILIIDARSYASAVTNRARGGGVECAEYYPNAEIEFMNLGN
IHVIRKSFQSLRQLCIDADIPNWFSLLEKTNWLQHISGLLSAANIVVHAIEKNNRPVLVH
CSDGWDRTSQISSISQLLLDPYYRTMEGFMVLVEKEWLAFGHKFGDRVGHGVGSDDTNER
CPVFLQWIDCVYQIHNQFPCSFEFTTSYLIKLAQHVHSCLFGTFLCNTLKERIENFINER
TFSVWPFLSTPIYKNPLYQTTLDKVLWPSHRISSLVFWRELYGGSFHTPHSNGNDNLKIS
SDTIYTETGLIKTRSFDDLVSEIKSSKDSVRRLSDPSVFADSNTISMRVSILSCDSGTSN
GHNDDINNQEKGIKTNINNHILPLCTNNNNHIINNHNNGDINIDELANNEQSTTAKEEMM
IQTNLDVKIPECTIVEHQKNNEEKKEIKRGVEKEDENNHEGQEQIADDDLNNKDEIDGHK
MIETVENLEQHFKKLKSNFQNGHSKSKKESTSSNDSQFSTPVLRSITPATLEKTISSVDG
LSFALSQENLRLQQLVHEYKLKEEKLYYELLVTRRALVNATSCQCGKNQNNQRAHSAATS
EDPHQEYNSENSVCSWEAVDEKPNDGHNNHVPWIPDFARSKCKNCQIEFWLGRRRHHCRL
CMEIFCADCSDHFAQLPNNENIQCQYPVRLCEPCFKSIVEKETN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g3834.t2 Coils Coil Coil 734 754 -
9 g3834.t2 Coils Coil Coil 845 865 -
8 g3834.t2 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 920 1003 3.1E-18
14 g3834.t2 MobiDBLite mobidb-lite consensus disorder prediction 740 766 -
15 g3834.t2 MobiDBLite mobidb-lite consensus disorder prediction 800 819 -
3 g3834.t2 PANTHER PTHR10807:SF75 LD11744P 16 798 1.8E-265
4 g3834.t2 PANTHER PTHR10807 MYOTUBULARIN-RELATED 16 798 1.8E-265
2 g3834.t2 Pfam PF06602 Myotubularin-like phosphatase domain 171 532 2.7E-135
1 g3834.t2 Pfam PF01363 FYVE zinc finger 932 998 4.8E-16
11 g3834.t2 ProSitePatterns PS00383 Tyrosine specific protein phosphatases active site. 419 429 -
16 g3834.t2 ProSiteProfiles PS51339 Myotubularin phosphatase domain. 176 582 117.635
17 g3834.t2 ProSiteProfiles PS50178 Zinc finger FYVE/FYVE-related type profile. 936 999 11.673
12 g3834.t2 SMART SM00404 ptp_7 385 517 0.0072
13 g3834.t2 SMART SM00064 fyve_4 928 1000 6.0E-16
5 g3834.t2 SUPERFAMILY SSF50729 PH domain-like 62 153 4.73E-9
6 g3834.t2 SUPERFAMILY SSF52799 (Phosphotyrosine protein) phosphatases II 179 583 1.36E-138
7 g3834.t2 SUPERFAMILY SSF57903 FYVE/PHD zinc finger 932 999 4.93E-15

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:0046872 metal ion binding MF
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.

Raw TPM values