General information for g13723.t23
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Actin, muscle.
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.t23 | TSS | g13723.t23 | 32068015 | 32068015 |
| chr_1 | g13723 | g13723.t23 | isoform | g13723.t23 | 32068086 | 32069168 |
| chr_1 | g13723 | g13723.t23 | exon | g13723.t23.exon1 | 32068086 | 32069168 |
| chr_1 | g13723 | g13723.t23 | cds | g13723.t23.CDS1 | 32068608 | 32069168 |
| chr_1 | g13723 | g13723.t23 | TTS | g13723.t23 | 32069665 | 32069665 |
Sequences
>g13723.t23 Gene=g13723 Length=1083
GAATGTGCAAAGCTGGCTTCGCTGGTGATGACGCTCCACGTGCTGTCTTCCCATCAATCG
TAGGTCGCCCACGTCATCAAGGTGTTATGGTCGGTATGGGTCAAAAGGACTCATATGTTG
GTGATGAGGCCCAAAGCAAAGAGGTATCCTTACCTTGAAATACCCAATTGAGCACGGTAT
CATCACAAACTGGGATGATATGGAGAAGATCTGGCATCACACTTTCTACAATGAACTTCG
CGTTGCCCCAGAAGAGCACCCAGTCTTGCTCACAGAAGCTCCATTGAACCCAAAGGCTAA
CCGCGAGAAGATGACACAAATCATGTTTGAAACATTCAACTCACCAGCTATGTATGTTGC
CATCCAAGCCGTTCTCTCATTGTACGCCTCAGGTCGTACCACCGGTATTGTTTTGGATTC
AGGAGATGTGTCTCACACACAGTCCCAATTTATGAAGGTTATGCTTTGCCACATGCCATC
CTCCGTCTTGACTTGGCCGGTCGCGACTTGACTGACTACTTGATGAAGATCTTGACCGAA
CGCGGTTACTCATTCGTCACAACAGCTGAACGTGAAATCGTTCGTGACATCAAGGAAAAG
TTGTGCTATGTTGCATTGGACTTCGAACAAGAAATGGCCACCGCTGCTGCCTCAACCTCA
CTCGAGAAGTCATATGAATTGCCTGATGGTCAAGTTATCACCATCGGTAACGAACGTTTC
CGTTGCCCAGAATCATTGTTCCAACCATCATTCTTGGGTATGGAATCATGCGGTATTCAC
GAAACCGTCTACAATTCAATCATGAAGTGCGATGTTGATATCCGTAAGGACTTGTACGCC
AACAACGTCTTATCAGGTGGCACAACAATGTACCCAGGTATTGCCGATCGTATGCAAAAG
GAAATGACTGCCCTCGCTCCATCAACAATCAAGATCAAGATCATTGCTCCACCAGAACGT
AAATACTCAGTCTGGATCGGAGGTTCAATCTTGGCATCACTCTCAACCTTCCAGCAGATG
TGGATCTCAAAGGAAGAATACGACGAATCAGGCCCAGGCATTGTTCACCGCAAGTGCTTC
TAA
>g13723.t23 Gene=g13723 Length=186
MKILTERGYSFVTTAEREIVRDIKEKLCYVALDFEQEMATAAASTSLEKSYELPDGQVIT
IGNERFRCPESLFQPSFLGMESCGIHETVYNSIMKCDVDIRKDLYANNVLSGGTTMYPGI
ADRMQKEMTALAPSTIKIKIIAPPERKYSVWIGGSILASLSTFQQMWISKEEYDESGPGI
VHRKCF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g13723.t23 | Gene3D | G3DSA:3.90.640.10 | Actin; Chain A | 1 | 82 | 2.8E-43 |
| 8 | g13723.t23 | Gene3D | G3DSA:3.30.420.40 | - | 83 | 186 | 3.0E-19 |
| 2 | g13723.t23 | PANTHER | PTHR11937:SF397 | ACTIN, INDIRECT FLIGHT MUSCLE-RELATED | 1 | 185 | 2.0E-118 |
| 3 | g13723.t23 | PANTHER | PTHR11937 | ACTIN | 1 | 185 | 2.0E-118 |
| 1 | g13723.t23 | Pfam | PF00022 | Actin | 6 | 186 | 5.1E-69 |
| 6 | g13723.t23 | ProSitePatterns | PS00432 | Actins signature 2. | 167 | 175 | - |
| 5 | g13723.t23 | SMART | SM00268 | actin_3 | 1 | 186 | 1.7E-22 |
| 4 | g13723.t23 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 1 | 186 | 2.22E-77 |
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.
