General information for g13723.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Actin-5, muscle-specific.
Parent gene
- The parent gene g13723 is located on chr_1: 32068086..32069646 (+ 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_1 | g13723 | g13723.t17 | isoform | g13723.t17 | 32067408 | 32069646 |
| chr_1 | g13723 | g13723.t17 | exon | g13723.t17.exon1 | 32067408 | 32067468 |
| chr_1 | g13723 | g13723.t17 | TSS | g13723.t17 | 32067418 | 32067418 |
| chr_1 | g13723 | g13723.t17 | exon | g13723.t17.exon2 | 32068016 | 32068687 |
| chr_1 | g13723 | g13723.t17 | exon | g13723.t17.exon3 | 32068776 | 32069646 |
| chr_1 | g13723 | g13723.t17 | cds | g13723.t17.CDS1 | 32068845 | 32069168 |
| chr_1 | g13723 | g13723.t17 | TTS | g13723.t17 | 32069665 | 32069665 |
Sequences
>g13723.t17 Gene=g13723 Length=1604
AAAAGTCGTTTAGTTAAAGTGTACAGATCGTTTCTGGTGGCTTCAGTTTCTTGTAGTGAA
GAAAAAAACTTAAACTCCATTCAAAATGTGTGATGATGATGTTGCTGCATTGGTCGTTGA
CAATGGCTCAGGAATGTGCAAAGCTGGCTTCGCTGGTGATGACGCTCCACGTGCTGTCTT
CCCATCAATCGTAGGTCGCCCACGTCATCAAGGTGTTATGGTCGGTATGGGTCAAAAGGA
CTCATATGTTGGTGATGAGGCCCAAAGCAAAGAGGTATCCTTACCTTGAAATACCCAATT
GAGCACGGTATCATCACAAACTGGGATGATATGGAGAAGATCTGGCATCACACTTTCTAC
AATGAACTTCGCGTTGCCCCAGAAGAGCACCCAGTCTTGCTCACAGAAGCTCCATTGAAC
CCAAAGGCTAACCGCGAGAAGATGACACAAATCATGTTTGAAACATTCAACTCACCAGCT
ATGTATGTTGCCATCCAAGCCGTTCTCTCATTGTACGCCTCAGGTCGTACCACCGGTATT
GTTTTGGATTCAGGAGATGTGTCTCACACACAGTCCCAATTTATGAAGGTTATGCTTTGC
CACATGCCATCCTCCGTCTTGACTTGGCCGGTCGCGACTTGACTGACTACTTGATGAAGA
TCTTGACCGAACGCGGTTACTCATTCGTCACAACAGCTGAACGTGAAATCGTTCGTGACA
TCAAGGAAAAGTTCAAGTTATCACCATCGGTAACGAACGTTTCCGTTGCCCAGAATCATT
GTTCCAACCATCATTCTTGGGTATGGAATCATGCGGTATTCACGAAACCGTCTACAATTC
AATCATGAAGTGCGATGTTGATATCCGTAAGGACTTGTACGCCAACAACGTCTTATCAGG
TGGCACAACAATGTACCCAGGTATTGCCGATCGTATGCAAAAGGAAATGACTGCCCTCGC
TCCATCAACAATCAAGATCAAGATCATTGCTCCACCAGAACGTAAATACTCAGTCTGGAT
CGGAGGTTCAATCTTGGCATCACTCTCAACCTTCCAGCAGATGTGGATCTCAAAGGAAGA
ATACGACGAATCAGGCCCAGGCATTGTTCACCGCAAGTGCTTCTAAATCAATCAATCACA
CCAAAAATACAACCAATCAACAACAATTTTACTTTCTACATTTTTTCTATTATAATGATA
AATTAATAAAAAAATATTTTAACATCAACATCAAAAAAAAAACAACAAACAACCGTCTGC
ACACCCCAAAAACAACAACATCAATATATCACAATACACCGCCATCAGTTTTTGTGAAAA
AAAGTTTTTTTTCTTTCTTTCTATATTAATTTCTTTAAATTTTAAAGTCCTTTCAATTAT
CATTCATTTCTAAATTATGTTTTTTTGATTAAAATATTTCTCTTTTAATTATAAAAACTG
TATTATGAATTTATTTGGTATATTGAAATGGACGATAGAAAAGAAAATGAGAAAAAATTT
GCATTCATTTTTACTTATCGTTAAGGAGACTGTTTATAATTTTTTTTCGTTTATTGAGAA
AATGAATTAAAATGATAAGATTCTATTTGCGAAAATATTACAAA
>g13723.t17 Gene=g13723 Length=107
MESCGIHETVYNSIMKCDVDIRKDLYANNVLSGGTTMYPGIADRMQKEMTALAPSTIKIK
IIAPPERKYSVWIGGSILASLSTFQQMWISKEEYDESGPGIVHRKCF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g13723.t17 | Gene3D | G3DSA:3.30.420.40 | - | 7 | 69 | 3.7E-49 |
| 6 | g13723.t17 | Gene3D | G3DSA:3.30.420.40 | - | 70 | 103 | 3.7E-49 |
| 2 | g13723.t17 | PANTHER | PTHR11937:SF397 | ACTIN, INDIRECT FLIGHT MUSCLE-RELATED | 1 | 106 | 2.3E-61 |
| 3 | g13723.t17 | PANTHER | PTHR11937 | ACTIN | 1 | 106 | 2.3E-61 |
| 1 | g13723.t17 | Pfam | PF00022 | Actin | 3 | 107 | 5.6E-45 |
| 5 | g13723.t17 | ProSitePatterns | PS00432 | Actins signature 2. | 88 | 96 | - |
| 4 | g13723.t17 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 2 | 107 | 4.91E-46 |
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.
