General information for g14309.t23
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Actin, cytoplasmic A3a.
Parent gene
- The parent gene g14309 is located on chr_1: 36552428..36555404 (- 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 | g14309 | g14309.t23 | TTS | g14309.t23 | 36551672 | 36551672 |
| chr_1 | g14309 | g14309.t23 | isoform | g14309.t23 | 36552119 | 36554119 |
| chr_1 | g14309 | g14309.t23 | exon | g14309.t23.exon1 | 36552119 | 36552137 |
| chr_1 | g14309 | g14309.t23 | cds | g14309.t23.CDS1 | 36552128 | 36552137 |
| chr_1 | g14309 | g14309.t23 | exon | g14309.t23.exon2 | 36552665 | 36553070 |
| chr_1 | g14309 | g14309.t23 | cds | g14309.t23.CDS2 | 36552665 | 36553062 |
| chr_1 | g14309 | g14309.t23 | exon | g14309.t23.exon3 | 36553948 | 36554119 |
| chr_1 | g14309 | g14309.t23 | TSS | g14309.t23 | 36554119 | 36554119 |
Sequences
>g14309.t23 Gene=g14309 Length=597
ACTTTGAATTGAGTTGTTGAAGAGTTTAGACGTTTTCTGTGAACGGTCTTTTGAATCATT
TTTTCCAATAAAAAATTAATTAAATCAATAGTGCTGTGTTTTAAAATTGCCGTAAAAGCA
TTCTCAAATCACCAATACTTTCTTTATTGTGAAATTTAAGGACTAAAACAAGAAATCAAA
ATGTGTGACGAAGAAGTTGCTGCATTGGTCGTTGACAATGGATCAGGAATGTGCAAAGCC
GGTTTTGCTGGTGATGATGCACCACGTGCCGTTTTCCCATCAATTGTCGGTCGTCCACGT
CATCAAGGCGTTATGGTCGGTATGGGACAAAAGGACTCATATGTTGGTGATGAGGCTCAA
AGCAAAAGAGGTATTCTTACCTTGAAATATCCAATTGAACACGGTATTGTTACAAACTGG
GATGATATGGAAAAGATCTGGCATCATACTTTCTACAATGAACTCCGTGTTGCACCTGAA
GAACATCCAGTCTTGCTTACCGAAGCTCCATTAAATCCAAAAGCAAATCGTGAAAAGATG
ACACAAATTATGTTCGAGACATTCAACACACCAGCTATGTATCGCTGATCGTATGCA
>g14309.t23 Gene=g14309 Length=135
MCDEEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQ
SKRGILTLKYPIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKM
TQIMFETFNTPAMYR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g14309.t23 | CDD | cd00012 | NBD_sugar-kinase_HSP70_actin | 9 | 134 | 9.64887E-10 |
| 9 | g14309.t23 | Gene3D | G3DSA:2.30.36.70 | Actin; Chain A | 35 | 72 | 1.1E-29 |
| 2 | g14309.t23 | PANTHER | PTHR11937:SF193 | ACTIN, ALPHA SKELETAL MUSCLE | 2 | 134 | 3.0E-91 |
| 3 | g14309.t23 | PANTHER | PTHR11937 | ACTIN | 2 | 134 | 3.0E-91 |
| 5 | g14309.t23 | PRINTS | PR00190 | Actin signature | 27 | 36 | 5.5E-33 |
| 6 | g14309.t23 | PRINTS | PR00190 | Actin signature | 50 | 61 | 5.5E-33 |
| 7 | g14309.t23 | PRINTS | PR00190 | Actin signature | 62 | 84 | 5.5E-33 |
| 4 | g14309.t23 | PRINTS | PR00190 | Actin signature | 116 | 129 | 5.5E-33 |
| 1 | g14309.t23 | Pfam | PF00022 | Actin | 4 | 134 | 3.6E-49 |
| 12 | g14309.t23 | ProSitePatterns | PS00406 | Actins signature 1. | 54 | 64 | - |
| 11 | g14309.t23 | ProSitePatterns | PS01132 | Actins and actin-related proteins signature. | 105 | 117 | - |
| 13 | g14309.t23 | SMART | SM00268 | actin_3 | 6 | 135 | 1.7E-5 |
| 8 | g14309.t23 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 5 | 134 | 3.88E-60 |
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.
