General information for g3978.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Myosin heavy chain 95F.
Parent gene
- The parent gene g3978 is located on chr_3: 29354185..29355636 (+ 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 | g3978 | g3978.t3 | isoform | g3978.t3 | 29352430 | 29353524 |
| chr_3 | g3978 | g3978.t3 | exon | g3978.t3.exon1 | 29352430 | 29352455 |
| chr_3 | g3978 | g3978.t3 | exon | g3978.t3.exon2 | 29352534 | 29353524 |
| chr_3 | g3978 | g3978.t3 | cds | g3978.t3.CDS1 | 29352969 | 29353523 |
| chr_3 | g3978 | g3978.t3 | TTS | g3978.t3 | 29353714 | 29353714 |
| chr_3 | g3978 | g3978.t3 | TSS | g3978.t3 | NA | NA |
Sequences
>g3978.t3 Gene=g3978 Length=1017
ACTTTCCCCAAAATTCATTGGAACAATTTTGTATTAACTATTGTAATGAAAAGCTTCAGA
AATTTTTCAATGATAATATTCTCGCTAATGAGCAAGATTTGTATAAGCGTGAAGGGCTCA
ATGTTCCCGAAATCAAGTTTACTGATAATCAAGATATTATTGAGCTCATTGAATCTAAAG
CAAACGGAATCTTCACATTACTCGATGAAGAATCAAAACTTCCTAAACCATCATTTGTTC
ATTTCACTTCTGAAGTGCATGCAGCCTGGAATGGTCATTTCCGAATTTCTTTACCAAGAG
CATCGCGATTAAAAATTCATAGAAGTTTGAGAGATGATGAAGGTTTTCTTATTAGACATT
TTGCTGGTGCTGTATGCTATTCTACAAATCAATTTATTGAGAAAAATAATGATGCTCTTC
ATGCATCATTAGAGTGTCTCATTCAAGAGTCTGGAAATTCAATGATGAAAAAGTTGTTTT
CATCAAATAATAATTCTGTGACAAAAGGAAAATTGTCTTTTATTTCTGTCGGATCAAAAT
TCAAAACTCAACTTCAAGAACTTATGGATAAACTTGAAAAAAATGGAACAAATTTCATTC
GATGTATCAAACCAAACAGTAGAATGACTGACCATGAATTCGAAGGTGGTTTGGCACTGA
ATCAATTAATTTGCAGTGGAACAGCATCTGTTTTAGAGCTTATGTCATTCGGTTTTCCAT
CAAGAGTGCCTTTTGCAGAATTATACAATATGTACAAGTCCTACTTGCCCGCAGACTTGA
TAAAATTAGCACCAAGAACTTTCTGTGAAGCTATGTTGCATTCACTTAATCTTAATAGCA
AAGATTTTAAATTTGGCATCACTAAGGTATTCTTTAGACCTGGAACATATGTTCAATTTG
ATCGAATTATGAAAAGTGATCCGGAAAATCTCAAAGTTATTGTTCAAAATGTTAAAAAAT
GGCTCGTTCGATCACGCTGGAAGAAGTCAGTTCATTGTGCAATATGCGTCATTAAAA
>g3978.t3 Gene=g3978 Length=185
MMKKLFSSNNNSVTKGKLSFISVGSKFKTQLQELMDKLEKNGTNFIRCIKPNSRMTDHEF
EGGLALNQLICSGTASVLELMSFGFPSRVPFAELYNMYKSYLPADLIKLAPRTFCEAMLH
SLNLNSKDFKFGITKVFFRPGTYVQFDRIMKSDPENLKVIVQNVKKWLVRSRWKKSVHCA
ICVIK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3978.t3 | Gene3D | G3DSA:3.40.850.10 | Kinesin | 9 | 84 | 0.0 |
| 7 | g3978.t3 | Gene3D | G3DSA:3.30.70.1590 | - | 85 | 150 | 0.0 |
| 5 | g3978.t3 | Gene3D | G3DSA:1.10.3060.20 | - | 151 | 185 | 0.0 |
| 2 | g3978.t3 | PANTHER | PTHR13140:SF794 | MYOSIN VIA | 11 | 173 | 0.0 |
| 3 | g3978.t3 | PANTHER | PTHR13140 | MYOSIN | 11 | 173 | 0.0 |
| 1 | g3978.t3 | Pfam | PF00063 | Myosin head (motor domain) | 9 | 139 | 0.0 |
| 8 | g3978.t3 | ProSiteProfiles | PS51456 | Myosin motor domain profile. | 1 | 151 | 37.8 |
| 4 | g3978.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 7 | 176 | 0.0 |
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:0005524 | ATP binding | MF |
| GO:0016459 | myosin complex | CC |
| GO:0003774 | cytoskeletal motor activity | MF |
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.
