General information for g7716.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Myotubularin-related protein 8.
Parent gene
- The parent gene g7716 is located on chr_2: 25435961..25442759 (- 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_2 | g7716 | g7716.t2 | TTS | g7716.t2 | 25435619 | 25435619 |
| chr_2 | g7716 | g7716.t2 | isoform | g7716.t2 | 25435961 | 25441576 |
| chr_2 | g7716 | g7716.t2 | exon | g7716.t2.exon1 | 25435961 | 25436098 |
| chr_2 | g7716 | g7716.t2 | cds | g7716.t2.CDS1 | 25435961 | 25436098 |
| chr_2 | g7716 | g7716.t2 | exon | g7716.t2.exon2 | 25436172 | 25436510 |
| chr_2 | g7716 | g7716.t2 | cds | g7716.t2.CDS2 | 25436172 | 25436510 |
| chr_2 | g7716 | g7716.t2 | exon | g7716.t2.exon3 | 25436590 | 25437015 |
| chr_2 | g7716 | g7716.t2 | cds | g7716.t2.CDS3 | 25436590 | 25437015 |
| chr_2 | g7716 | g7716.t2 | exon | g7716.t2.exon4 | 25437077 | 25437141 |
| chr_2 | g7716 | g7716.t2 | cds | g7716.t2.CDS4 | 25437077 | 25437141 |
| chr_2 | g7716 | g7716.t2 | exon | g7716.t2.exon5 | 25437202 | 25437276 |
| chr_2 | g7716 | g7716.t2 | cds | g7716.t2.CDS5 | 25437202 | 25437276 |
| chr_2 | g7716 | g7716.t2 | exon | g7716.t2.exon6 | 25437870 | 25438170 |
| chr_2 | g7716 | g7716.t2 | cds | g7716.t2.CDS6 | 25437870 | 25438170 |
| chr_2 | g7716 | g7716.t2 | exon | g7716.t2.exon7 | 25438230 | 25438648 |
| chr_2 | g7716 | g7716.t2 | cds | g7716.t2.CDS7 | 25438230 | 25438648 |
| chr_2 | g7716 | g7716.t2 | exon | g7716.t2.exon8 | 25441414 | 25441576 |
| chr_2 | g7716 | g7716.t2 | cds | g7716.t2.CDS8 | 25441414 | 25441567 |
| chr_2 | g7716 | g7716.t2 | TSS | g7716.t2 | NA | NA |
Sequences
>g7716.t2 Gene=g7716 Length=1926
ATTCTTCATATGCATATTGCAAACATAGAAAAACAGCCATTGAGTACAACTGGATCTCCA
CTTTTAATTCGATGTAAAACATTTCTATCAGTGACGTTTGTAATTGCAAAAGAGCGTGAA
TGTCATGATGTTTATACCACTCTTATTAAACTTTGTCAACCAGTCAATATTCAAAATCTC
TACTGTTTTCAATACACATCAAGTAGTGAGGAGTTGAGTAAATCCGCAGGATGGGACTTC
TTTAAATTAGAAAATGAATACAAGCGAATGAAAGTACCAAACGATTATTGGCAATTGACT
ACAATGAACAAAAATTATGAGCTATGTGATACATATCCAAGCCAAATTTACATTCCAACT
ACAGTTGACAAAACAGTTTTACTAGGAAGTTCAAGATTTCGTAGCAAAGGACGTTTACCT
GCTTTGACATATTTGCACCCAAACAAAGCATCTATATGTCGATGCTCACAACCTTTGTCA
GGTTTCTCTGCTCGTTGTGTTGAAGACGAACAAATGTTGCAGGAAATTCGTAAAACAAAT
CCCAATTCCAACATTCTTTATGTAGTAGATACACGACCAAGGATTAATGCAATGGCAAAT
AGAGCTGCCGGCAAGGGCTACGAAAACGAATTATTCTATGAAAATACAAAATTTCACTTT
TTGGGTATAGAAAATATTCATACAATGAGAGCGAGTTTGCAAAAGCTGATTGAGACGTGT
GAGCAAAAATCAATGAGTGGATTTTTAAGTGCACTCGAATCGTCAGGATGGTTGAAGCAC
ATTCGTTCAATGTTGGATACATCATATTTTATTGCAAATGCTGTTTACAAAGGAATTTCT
GTAGTTGTACATTGCTCAGGTATGTTGAATAATTTAGGATCGATATGTTCACTTGCATCG
TTAATGCTAGATCCATTCTACCGTACAATTAAAGGTTTTCAATCTCTTATTGAAAAAGAT
TGGCTTTCCTTTGGTCATAAATTTAGCGAACGATGTGGGCATTTGCAAACCGATCCAAAA
GAGATTTCACCCATATTTACACAGTTTTTGGAGAGCGTATGGCAAATAATGCAACAGCGA
GTTGATGCATTTGAATTTAATGAAAGATTTTTATTGATTCTTCATGACCATGTTATGAGC
TGTCAATTTGGTACATTTATTGGAAATTGTGAAAAAGATAGAATAGACCTTAAATTGTCT
GAAAAGACTTTTTCGCTTTGGGGATACATGGCAAATCATATGAATGAATATTTAAACCCA
ATTTATAAGCCAGGAGAGGTCGATGATATCATTGTTCCTAATCTTGCTCCTCAATGCATA
AAATATTGGAGAGGCATGTATAGTAGATTCGAGAGCGGTGTTCATCCGCGAGAGGATTTA
TCTGACTTATTGCTAGCAAATAAAGAGCACTGTAGTTCTCTCGATGACCATGTGCAACAC
TTAACGAAGCGCATCGGAAATTTAAAAAATTTGATATCCAAATCAGCAAAAAAATTACAA
GCAAATAGTGCAACACTTTTGCAAAACGCAACTGGAAAAAATAGTACAGACAATAAGTTT
AACTATGATAATAAAAAATTGAGCGAGCTTCAATCAGCTGATCACGACCATCCTCTTAAA
TTAAATGATAATAACTATTCATTTTCGAATTTATCTGTATCAGACTGCAATACTGCTGAA
ATAGATCAAATTACATCTGAAATTAATTCAGTTGCTTTAGATTGGAAATCTCTAAGAAGT
GCAAATGCATGTTCATGTTCAACTCCATTTTCACAAGAAATGAAAAAGACACACTGTTGG
CGATGTGGCGAAATTTTCTGCACGCGATGCATTGATAAGTCTATTCCTCTACCAGGACAA
CATTCACAAAAACCGCGACCTGTATGTAGAACATGCTTTAAATTAGTTACAACAGTTAGT
CCTTAA
>g7716.t2 Gene=g7716 Length=638
MHIANIEKQPLSTTGSPLLIRCKTFLSVTFVIAKERECHDVYTTLIKLCQPVNIQNLYCF
QYTSSSEELSKSAGWDFFKLENEYKRMKVPNDYWQLTTMNKNYELCDTYPSQIYIPTTVD
KTVLLGSSRFRSKGRLPALTYLHPNKASICRCSQPLSGFSARCVEDEQMLQEIRKTNPNS
NILYVVDTRPRINAMANRAAGKGYENELFYENTKFHFLGIENIHTMRASLQKLIETCEQK
SMSGFLSALESSGWLKHIRSMLDTSYFIANAVYKGISVVVHCSGMLNNLGSICSLASLML
DPFYRTIKGFQSLIEKDWLSFGHKFSERCGHLQTDPKEISPIFTQFLESVWQIMQQRVDA
FEFNERFLLILHDHVMSCQFGTFIGNCEKDRIDLKLSEKTFSLWGYMANHMNEYLNPIYK
PGEVDDIIVPNLAPQCIKYWRGMYSRFESGVHPREDLSDLLLANKEHCSSLDDHVQHLTK
RIGNLKNLISKSAKKLQANSATLLQNATGKNSTDNKFNYDNKKLSELQSADHDHPLKLND
NNYSFSNLSVSDCNTAEIDQITSEINSVALDWKSLRSANACSCSTPFSQEMKKTHCWRCG
EIFCTRCIDKSIPLPGQHSQKPRPVCRTCFKLVTTVSP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g7716.t2 | CDD | cd15738 | FYVE_MTMR_unchar | 570 | 630 | 0.0000000 |
| 9 | g7716.t2 | Gene3D | G3DSA:2.30.29.30 | - | 1 | 48 | 0.0000000 |
| 10 | g7716.t2 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 570 | 634 | 0.0000000 |
| 3 | g7716.t2 | PANTHER | PTHR10807 | MYOTUBULARIN-RELATED | 2 | 534 | 0.0000000 |
| 4 | g7716.t2 | PANTHER | PTHR10807:SF36 | MYOTUBULARIN-RELATED PROTEIN 8 | 2 | 534 | 0.0000000 |
| 2 | g7716.t2 | Pfam | PF06602 | Myotubularin-like phosphatase domain | 57 | 391 | 0.0000000 |
| 1 | g7716.t2 | Pfam | PF01363 | FYVE zinc finger | 572 | 633 | 0.0000000 |
| 11 | g7716.t2 | ProSiteProfiles | PS51339 | Myotubularin phosphatase domain. | 74 | 444 | 120.1650000 |
| 12 | g7716.t2 | ProSiteProfiles | PS50178 | Zinc finger FYVE/FYVE-related type profile. | 583 | 634 | 9.7640000 |
| 8 | g7716.t2 | SMART | SM00064 | fyve_4 | 567 | 635 | 0.0000010 |
| 5 | g7716.t2 | SUPERFAMILY | SSF50729 | PH domain-like | 3 | 62 | 0.0000209 |
| 6 | g7716.t2 | SUPERFAMILY | SSF52799 | (Phosphotyrosine protein) phosphatases II | 71 | 447 | 0.0000000 |
| 7 | g7716.t2 | SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 572 | 635 | 0.0000000 |
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:0010506 | regulation of autophagy | BP |
| GO:0052629 | phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity | MF |
| GO:0046856 | phosphatidylinositol dephosphorylation | BP |
| GO:0004438 | phosphatidylinositol-3-phosphatase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K18083 (myotubularin-related protein 6/7/8)
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.
