General information for g2404.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dynamin-like 120 kDa protein, mitochondrial.
Parent gene
- The parent gene g2404 is located on chr_3: 17684052..17685700 (- 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 | g2404 | g2404.t1 | isoform | g2404.t1 | 17682086 | 17685700 |
| chr_3 | g2404 | g2404.t1 | exon | g2404.t1.exon1 | 17682086 | 17682150 |
| chr_3 | g2404 | g2404.t1 | cds | g2404.t1.CDS1 | 17682086 | 17682150 |
| chr_3 | g2404 | g2404.t1 | exon | g2404.t1.exon2 | 17682219 | 17682293 |
| chr_3 | g2404 | g2404.t1 | cds | g2404.t1.CDS2 | 17682219 | 17682293 |
| chr_3 | g2404 | g2404.t1 | exon | g2404.t1.exon3 | 17682355 | 17682484 |
| chr_3 | g2404 | g2404.t1 | cds | g2404.t1.CDS3 | 17682355 | 17682484 |
| chr_3 | g2404 | g2404.t1 | exon | g2404.t1.exon4 | 17682543 | 17682654 |
| chr_3 | g2404 | g2404.t1 | cds | g2404.t1.CDS4 | 17682543 | 17682654 |
| chr_3 | g2404 | g2404.t1 | exon | g2404.t1.exon5 | 17682708 | 17684667 |
| chr_3 | g2404 | g2404.t1 | cds | g2404.t1.CDS5 | 17682708 | 17684667 |
| chr_3 | g2404 | g2404.t1 | exon | g2404.t1.exon6 | 17684762 | 17684803 |
| chr_3 | g2404 | g2404.t1 | cds | g2404.t1.CDS6 | 17684762 | 17684803 |
| chr_3 | g2404 | g2404.t1 | exon | g2404.t1.exon7 | 17684924 | 17685043 |
| chr_3 | g2404 | g2404.t1 | cds | g2404.t1.CDS7 | 17684924 | 17685043 |
| chr_3 | g2404 | g2404.t1 | exon | g2404.t1.exon8 | 17685111 | 17685246 |
| chr_3 | g2404 | g2404.t1 | cds | g2404.t1.CDS8 | 17685111 | 17685246 |
| chr_3 | g2404 | g2404.t1 | exon | g2404.t1.exon9 | 17685304 | 17685574 |
| chr_3 | g2404 | g2404.t1 | cds | g2404.t1.CDS9 | 17685304 | 17685574 |
| chr_3 | g2404 | g2404.t1 | exon | g2404.t1.exon10 | 17685672 | 17685700 |
| chr_3 | g2404 | g2404.t1 | cds | g2404.t1.CDS10 | 17685672 | 17685700 |
| chr_3 | g2404 | g2404.t1 | TSS | g2404.t1 | NA | NA |
| chr_3 | g2404 | g2404.t1 | TTS | g2404.t1 | NA | NA |
Sequences
>g2404.t1 Gene=g2404 Length=2940
ATGTCTCAAATACTCCGTCGTAATTCAAGGATAAATTTTATTTATCGCTCGTTAAGACCG
GTTGTCATTAATGCCACAAAATTAAACTATTCAGTACTGAGTGGACGAAATCAATGGAAT
CATTATGGAAATTTGAGATATAGACAAAATCAATTATTTGATAACAACCTCTTGTTAAAA
AATAATCCAGCAAATTTCAGAAATTATGGAATGCTTGTTGGTAGAATATTGAGAGGTGCA
TTGAAACTGAGATATTTGTTACTTGGTGGTGCAGTTGGTGGAACAGTTACACTCAATAGT
AAATATGAGCAATGGAAAGAAGGTCTTCCTGATATGAAATGGCTTAATGAAGTCTTTCCT
GATAATGACCAATGGCAAAAGTTTTCAAATTCAGTTATCGGCATAACGGAGTCACTTAAA
AATTCTATTGAACTTGATCCAAAATTAAAGAAATTAGGTGAGGATAAATTGATTGAATGG
AGAAATTGGTTCGATAGTCGATTAGATAACGCCATTGAAGCAACTGAAATTGAAACACAG
CTAGAAAATGCCGAAAGACAATTCACGATGCTGACGATTTTAAATAATTTCCTCGAAGAT
CTCGGAGCAGATTTGGTACAGAAATCGAAAGTCATTGCAAAAGAAATGAGTTATGAGGAA
CACAAAAGGAAAAATCAGATACTTCAAAAACAAATTGATCAGCTGCAAACTGAAATCATG
AATGTTCAAATCAAATATCAAAAAGAATTAGAAAAGCTTGAGAAAGAAAATCGTGACCTT
CGACAACAGTATTTGTTAACTAAAACAAATAGAAAGATGATATCTTCAAAGAAAATTAAA
AAATCACTTATTGATATGTACTCTGAAGTGCTTGATGAATTAAGCGGATATGATTCAAGT
TACTCAACTGCAGACCATTTACCTCGTGTTGTTGTTGTTGGAGATCAAAGTAGCGGAAAA
ACCTCTGTTCTCGAATCAATAGCACAAGCAAGAATATTTCCTCGTGGAAGTGGTGAAATG
ATGACAAGAGCACCAGTAAAAGTGACACTCTCAGAAGGTCCATATCATGTCGCCGCTTTT
CGTGATTCAAATCGAGAATTTGATTTGACTAAAGAAAGTGATTTAGCTGAACTCAGACGT
GAAGTTGAAATTCGAATGAGAAATTCAGTTCGTGGTGGAAAAACTGTGAGCAATGAAGTC
ATTTCGATGACTGTTAAAGGACCAGGTTTGCAACGAATGGTTCTTGTTGATTTACCAGGA
ATAATATCAACCCAGACAGTTGATATGGCAGCTGACACTAAAGATTCAATTACCATGATG
ACAAAACATTATATGAGCAATCCAAATGCTATCATTTTGTGTATTCAAGATGGTTCAGTT
GATGCAGAACGTTCTGCAGTGACAGATTTAGTGGCCAATTGTGATCCACTTGGCAAAAGA
ACAATATTTGTTATGACTAAAGTCGATATGGCTGAAAGTCTGGCTGACCCAGATAGAATT
CGTCGTATTTTAAGTGGAAAGCTTTTTCCTATGAAGGCATTGGGATATTTCGCAGTTGTG
ACAGGACGTGGAAGAAAAGATGACTCGATTGATACTATTCGAGACTATGAAGAAAATTTC
TTTAAAAATTCAAAACTGTTTCAAAGCGGCGTTACAATGTCACATCAATGCACATCGAGA
AACTTAAGTCTTGCAGTTGCTGATCGATTTTGGAAAATGGTGCGTGAAACGATAGAACAA
CAAGCTGACGCTTTTAAAGCTACTCGATTTAACCTTGAAACAGAATGGAAAAACAACTTT
CCTAGAATTCGTGAGTCAGGCCGTGATGAATTGTATGAAAAGGCGAGAGGTGAAGTGCTT
GATGAGGTTGTAAATTTATCACAAATAAGTTCAAAGAAGTGGGAAGAGCTTTTAAATAAG
AAGCTTTGGGAAAAGATTTCAAATTATGTTTTCGAAAATATTTACCTACCTGCAGCACAA
TCTGGTTCACAAAATTCATTCAATACGATGGTTGATATAAAATTGCGTCAATGGGCTGAA
GAAGTTTTACCTTCAAAAAGCGTCGAGACGGGTTGGGAAACTTTGCAAGATGAATTTGCA
AATTTAATTGAAAAGGCTAAAAAGAATCCTGATCATGATGATATTTTTGATCATTTGAAA
TCAGCTGTCATTGATGAAGCAATGAGACGACATTCCTGGGAAGATAAAGCTATGGACATG
CTTCGTGTCATTCAATTAAATACACTCGAAGATCGTAATGTTCATGACAAACAAGAATGG
GATCAAGCTGTGAAATTTCTTGAAAGCTCAGTTAAAGATAAACTTTTGCATACTGAACAA
ACAATTGCAGAAATGTTCGGACCAACAACAACACAAAAATGGCTACATTGGAGGTCACCA
ACAGAAGATCAAAGAAAACGTAGACATGTCAAAGATGAACTCGATAAAATTCTTAATAGT
GATAAGAAACATCCGCCAACATTGAGTTATGATGAATTGACAACAGTACGCAAGAATTTA
CAAAGAAGTAATATTGAAGTCGAAACTGATTATATTAGAGAAACTTGGTATCCAATTTAT
CGAAAACACTTCCTCAATCATGCATTATCAAGGGCTTATGATCTTAGAAAAGCTTACTAC
TTGTATACACAACAAAATGAAAACTTTGAGATAAACTGCAGCGATGTCGTGCTGTTTTGG
AGAATTCAGCAAGTGATTAAAGTGACTGCAAATGCTTTACGTCAACAAATAATAAATCGA
GAAGCAAGAAGAGTTGACAAGGAAATTAAAGAAGTTTTAGATGAATTTGCTGATGATGAA
GATAAGAAGGTGCAATTGCTCACGGGTAAACGTGTAACATTAGCAGAAGAATTAATTCGC
GTGCGACACATTCAAGAAAAGTTGGAAGAATTCATTAATGCATTGAACACAGAAAAATAA
>g2404.t1 Gene=g2404 Length=979
MSQILRRNSRINFIYRSLRPVVINATKLNYSVLSGRNQWNHYGNLRYRQNQLFDNNLLLK
NNPANFRNYGMLVGRILRGALKLRYLLLGGAVGGTVTLNSKYEQWKEGLPDMKWLNEVFP
DNDQWQKFSNSVIGITESLKNSIELDPKLKKLGEDKLIEWRNWFDSRLDNAIEATEIETQ
LENAERQFTMLTILNNFLEDLGADLVQKSKVIAKEMSYEEHKRKNQILQKQIDQLQTEIM
NVQIKYQKELEKLEKENRDLRQQYLLTKTNRKMISSKKIKKSLIDMYSEVLDELSGYDSS
YSTADHLPRVVVVGDQSSGKTSVLESIAQARIFPRGSGEMMTRAPVKVTLSEGPYHVAAF
RDSNREFDLTKESDLAELRREVEIRMRNSVRGGKTVSNEVISMTVKGPGLQRMVLVDLPG
IISTQTVDMAADTKDSITMMTKHYMSNPNAIILCIQDGSVDAERSAVTDLVANCDPLGKR
TIFVMTKVDMAESLADPDRIRRILSGKLFPMKALGYFAVVTGRGRKDDSIDTIRDYEENF
FKNSKLFQSGVTMSHQCTSRNLSLAVADRFWKMVRETIEQQADAFKATRFNLETEWKNNF
PRIRESGRDELYEKARGEVLDEVVNLSQISSKKWEELLNKKLWEKISNYVFENIYLPAAQ
SGSQNSFNTMVDIKLRQWAEEVLPSKSVETGWETLQDEFANLIEKAKKNPDHDDIFDHLK
SAVIDEAMRRHSWEDKAMDMLRVIQLNTLEDRNVHDKQEWDQAVKFLESSVKDKLLHTEQ
TIAEMFGPTTTQKWLHWRSPTEDQRKRRHVKDELDKILNSDKKHPPTLSYDELTTVRKNL
QRSNIEVETDYIRETWYPIYRKHFLNHALSRAYDLRKAYYLYTQQNENFEINCSDVVLFW
RIQQVIKVTANALRQQIINREARRVDKEIKEVLDEFADDEDKKVQLLTGKRVTLAEELIR
VRHIQEKLEEFINALNTEK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g2404.t1 | CDD | cd08771 | DLP_1 | 306 | 579 | 2.62596E-87 |
| 11 | g2404.t1 | Coils | Coil | Coil | 218 | 270 | - |
| 10 | g2404.t1 | Coils | Coil | Coil | 961 | 979 | - |
| 9 | g2404.t1 | Gene3D | G3DSA:3.40.50.300 | - | 280 | 587 | 5.3E-77 |
| 2 | g2404.t1 | PANTHER | PTHR11566 | DYNAMIN | 233 | 979 | 0.0 |
| 3 | g2404.t1 | PANTHER | PTHR11566:SF67 | DYNAMIN-LIKE 120 KDA PROTEIN, MITOCHONDRIAL | 233 | 979 | 0.0 |
| 6 | g2404.t1 | PRINTS | PR00195 | Dynamin signature | 307 | 325 | 2.9E-18 |
| 5 | g2404.t1 | PRINTS | PR00195 | Dynamin signature | 332 | 349 | 2.9E-18 |
| 4 | g2404.t1 | PRINTS | PR00195 | Dynamin signature | 407 | 424 | 2.9E-18 |
| 7 | g2404.t1 | PRINTS | PR00195 | Dynamin signature | 476 | 492 | 2.9E-18 |
| 1 | g2404.t1 | Pfam | PF00350 | Dynamin family | 310 | 488 | 2.9E-40 |
| 14 | g2404.t1 | ProSiteProfiles | PS51718 | Dynamin-type guanine nucleotide-binding (G) domain profile. | 304 | 579 | 62.082 |
| 13 | g2404.t1 | SMART | SM00053 | dynamin_3 | 284 | 533 | 3.5E-12 |
| 8 | g2404.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 283 | 579 | 7.22E-49 |
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:0005739 | mitochondrion | CC |
| GO:0005525 | GTP binding | MF |
| GO:0007005 | mitochondrion organization | BP |
| GO:0006915 | apoptotic process | BP |
| GO:0003924 | GTPase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K17079 (optic atrophy protein 1)
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.
