General information for g13723.t6
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.t6 | isoform | g13723.t6 | 32067408 | 32069168 |
| chr_1 | g13723 | g13723.t6 | exon | g13723.t6.exon1 | 32067408 | 32067443 |
| chr_1 | g13723 | g13723.t6 | TSS | g13723.t6 | 32067418 | 32067418 |
| chr_1 | g13723 | g13723.t6 | exon | g13723.t6.exon2 | 32068016 | 32069168 |
| chr_1 | g13723 | g13723.t6 | cds | g13723.t6.CDS1 | 32068608 | 32069168 |
| chr_1 | g13723 | g13723.t6 | TTS | g13723.t6 | 32069665 | 32069665 |
Sequences
>g13723.t6 Gene=g13723 Length=1189
AAAAGTCGTTTAGTTAAAGTGTACAGATCGTTTCTGAAAAAAACTTAAACTCCATTCAAA
ATGTGTGATGATGATGTTGCTGCATTGGTCGTTGACAATGGCTCAGGAATGTGCAAAGCT
GGCTTCGCTGGTGATGACGCTCCACGTGCTGTCTTCCCATCAATCGTAGGTCGCCCACGT
CATCAAGGTGTTATGGTCGGTATGGGTCAAAAGGACTCATATGTTGGTGATGAGGCCCAA
AGCAAAGAGGTATCCTTACCTTGAAATACCCAATTGAGCACGGTATCATCACAAACTGGG
ATGATATGGAGAAGATCTGGCATCACACTTTCTACAATGAACTTCGCGTTGCCCCAGAAG
AGCACCCAGTCTTGCTCACAGAAGCTCCATTGAACCCAAAGGCTAACCGCGAGAAGATGA
CACAAATCATGTTTGAAACATTCAACTCACCAGCTATGTATGTTGCCATCCAAGCCGTTC
TCTCATTGTACGCCTCAGGTCGTACCACCGGTATTGTTTTGGATTCAGGAGATGTGTCTC
ACACACAGTCCCAATTTATGAAGGTTATGCTTTGCCACATGCCATCCTCCGTCTTGACTT
GGCCGGTCGCGACTTGACTGACTACTTGATGAAGATCTTGACCGAACGCGGTTACTCATT
CGTCACAACAGCTGAACGTGAAATCGTTCGTGACATCAAGGAAAAGTTGTGCTATGTTGC
ATTGGACTTCGAACAAGAAATGGCCACCGCTGCTGCCTCAACCTCACTCGAGAAGTCATA
TGAATTGCCTGATGGTCAAGTTATCACCATCGGTAACGAACGTTTCCGTTGCCCAGAATC
ATTGTTCCAACCATCATTCTTGGGTATGGAATCATGCGGTATTCACGAAACCGTCTACAA
TTCAATCATGAAGTGCGATGTTGATATCCGTAAGGACTTGTACGCCAACAACGTCTTATC
AGGTGGCACAACAATGTACCCAGGTATTGCCGATCGTATGCAAAAGGAAATGACTGCCCT
CGCTCCATCAACAATCAAGATCAAGATCATTGCTCCACCAGAACGTAAATACTCAGTCTG
GATCGGAGGTTCAATCTTGGCATCACTCTCAACCTTCCAGCAGATGTGGATCTCAAAGGA
AGAATACGACGAATCAGGCCCAGGCATTGTTCACCGCAAGTGCTTCTAA
>g13723.t6 Gene=g13723 Length=186
MKILTERGYSFVTTAEREIVRDIKEKLCYVALDFEQEMATAAASTSLEKSYELPDGQVIT
IGNERFRCPESLFQPSFLGMESCGIHETVYNSIMKCDVDIRKDLYANNVLSGGTTMYPGI
ADRMQKEMTALAPSTIKIKIIAPPERKYSVWIGGSILASLSTFQQMWISKEEYDESGPGI
VHRKCF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g13723.t6 | Gene3D | G3DSA:3.90.640.10 | Actin; Chain A | 1 | 82 | 2.8E-43 |
| 8 | g13723.t6 | Gene3D | G3DSA:3.30.420.40 | - | 83 | 186 | 3.0E-19 |
| 2 | g13723.t6 | PANTHER | PTHR11937:SF397 | ACTIN, INDIRECT FLIGHT MUSCLE-RELATED | 1 | 185 | 2.0E-118 |
| 3 | g13723.t6 | PANTHER | PTHR11937 | ACTIN | 1 | 185 | 2.0E-118 |
| 1 | g13723.t6 | Pfam | PF00022 | Actin | 6 | 186 | 5.1E-69 |
| 6 | g13723.t6 | ProSitePatterns | PS00432 | Actins signature 2. | 167 | 175 | - |
| 5 | g13723.t6 | SMART | SM00268 | actin_3 | 1 | 186 | 1.7E-22 |
| 4 | g13723.t6 | 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.
