General information for g3834.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Myotubularin-related protein 3.
Parent gene
- The parent gene g3834 is located on chr_3: 28293759..28295674 (+ strand)
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.t5 | isoform | g3834.t5 | 28293413 | 28294664 |
| chr_3 | g3834 | g3834.t5 | exon | g3834.t5.exon1 | 28293413 | 28293429 |
| chr_3 | g3834 | g3834.t5 | exon | g3834.t5.exon2 | 28293535 | 28293632 |
| chr_3 | g3834 | g3834.t5 | cds | g3834.t5.CDS1 | 28293603 | 28293632 |
| chr_3 | g3834 | g3834.t5 | exon | g3834.t5.exon3 | 28293690 | 28294664 |
| chr_3 | g3834 | g3834.t5 | cds | g3834.t5.CDS2 | 28293690 | 28294664 |
| chr_3 | g3834 | g3834.t5 | TSS | g3834.t5 | NA | NA |
| chr_3 | g3834 | g3834.t5 | TTS | g3834.t5 | NA | NA |
Sequences
>g3834.t5 Gene=g3834 Length=1090
TCTTGTACATTGTTCAGATGGGTGGGATCGTACTTCGCAAATTTCTAGTATATCGCAATT
GCTGCTTGATCCGTATTATAGAACTATGGAAGGATTTATGGTTTTAGTTGAAAAGGAATG
GTTGGCATTTGGCCACAAATTCGGTGATAGAGTTGGACACGGAGTTGGTAGTGATGATAC
AAATGAACGTTGTCCAGTTTTTCTTCAATGGATTGACTGCGTATATCAGATTCATAATCA
ATTTCCTTGTAGTTTTGAGTTTACAACATCATACCTCATTAAACTAGCTCAGCACGTGCA
CTCTTGCTTATTTGGCACATTTTTGTGCAACACTCTTAAAGAAAGAATTGAAAATTTCAT
TAACGAACGTACATTTTCCGTGTGGCCTTTCTTATCTACGCCCATTTACAAAAATCCTCT
ATATCAAACTACTCTTGACAAAGTCTTGTGGCCGTCGCATAGAATAAGTTCGCTGGTATT
TTGGAGAGAATTATATGGTGGAAGTTTTCATACACCACATTCAAATGGAAATGATAATTT
AAAGATATCGAGTGATACGATCTATACTGAGACTGGTCTCATTAAAACGAGAAGTTTTGA
CGATTTAGTTTCAGAAATTAAAAGCAGTAAAGATTCAGTGAGAAGACTTAGTGATCCCTC
AGTATTTGCAGATAGCAACACTATCTCAATGAGAGTTAGCATTTTGTCATGTGACAGTGG
AACAAGCAATGGTCATAATGATGACATTAATAATCAGGAAAAAGGAATTAAAACCAATAT
TAATAATCATATATTGCCGTTATGCACTAATAATAATAATCATATTATCAATAATCACAA
TAATGGTGACATAAACATTGATGAACTCGCTAATAACGAGCAATCAACTACAGCAAAAGA
AGAGATGATGATACAAACAAATCTCGATGTGAAAATTCCTGAGTGTACTATTGTTGAGCA
CCAAAAAAATAATGAAGAAAAAAAAGAAATAAAACGAGGAGTTGAAAAAGAAGACGAAAA
CAATCATGAAGGTCAAGAACAAATTGCCGATGATGATTTAAATAACAAAGATGAGATTGA
TGGGCATAAA
>g3834.t5 Gene=g3834 Length=335
MEGFMVLVEKEWLAFGHKFGDRVGHGVGSDDTNERCPVFLQWIDCVYQIHNQFPCSFEFT
TSYLIKLAQHVHSCLFGTFLCNTLKERIENFINERTFSVWPFLSTPIYKNPLYQTTLDKV
LWPSHRISSLVFWRELYGGSFHTPHSNGNDNLKISSDTIYTETGLIKTRSFDDLVSEIKS
SKDSVRRLSDPSVFADSNTISMRVSILSCDSGTSNGHNDDINNQEKGIKTNINNHILPLC
TNNNNHIINNHNNGDINIDELANNEQSTTAKEEMMIQTNLDVKIPECTIVEHQKNNEEKK
EIKRGVEKEDENNHEGQEQIADDDLNNKDEIDGHK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3834.t5 | Coils | Coil | Coil | 289 | 309 | - |
| 5 | g3834.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 294 | 335 | - |
| 2 | g3834.t5 | PANTHER | PTHR10807:SF75 | LD11744P | 1 | 317 | 2.0E-78 |
| 3 | g3834.t5 | PANTHER | PTHR10807 | MYOTUBULARIN-RELATED | 1 | 317 | 2.0E-78 |
| 1 | g3834.t5 | Pfam | PF06602 | Myotubularin-like phosphatase domain | 1 | 87 | 1.1E-40 |
| 7 | g3834.t5 | ProSiteProfiles | PS51339 | Myotubularin phosphatase domain. | 1 | 137 | 47.853 |
| 4 | g3834.t5 | SUPERFAMILY | SSF52799 | (Phosphotyrosine protein) phosphatases II | 1 | 138 | 9.18E-51 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
