General information for g14309.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Actin-5C.
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.t13 | TTS | g14309.t13 | 36551615 | 36551615 |
| chr_1 | g14309 | g14309.t13 | isoform | g14309.t13 | 36551627 | 36554119 |
| chr_1 | g14309 | g14309.t13 | exon | g14309.t13.exon1 | 36551627 | 36552513 |
| chr_1 | g14309 | g14309.t13 | cds | g14309.t13.CDS1 | 36551932 | 36552492 |
| chr_1 | g14309 | g14309.t13 | exon | g14309.t13.exon2 | 36552665 | 36553070 |
| chr_1 | g14309 | g14309.t13 | exon | g14309.t13.exon3 | 36553948 | 36554119 |
| chr_1 | g14309 | g14309.t13 | TSS | g14309.t13 | 36554119 | 36554119 |
Sequences
>g14309.t13 Gene=g14309 Length=1465
ACTTTGAATTGAGTTGTTGAAGAGTTTAGACGTTTTCTGTGAACGGTCTTTTGAATCATT
TTTTCCAATAAAAAATTAATTAAATCAATAGTGCTGTGTTTTAAAATTGCCGTAAAAGCA
TTCTCAAATCACCAATACTTTCTTTATTGTGAAATTTAAGGACTAAAACAAGAAATCAAA
ATGTGTGACGAAGAAGTTGCTGCATTGGTCGTTGACAATGGATCAGGAATGTGCAAAGCC
GGTTTTGCTGGTGATGATGCACCACGTGCCGTTTTCCCATCAATTGTCGGTCGTCCACGT
CATCAAGGCGTTATGGTCGGTATGGGACAAAAGGACTCATATGTTGGTGATGAGGCTCAA
AGCAAAAGAGGTATTCTTACCTTGAAATATCCAATTGAACACGGTATTGTTACAAACTGG
GATGATATGGAAAAGATCTGGCATCATACTTTCTACAATGAACTCCGTGTTGCACCTGAA
GAACATCCAGTCTTGCTTACCGAAGCTCCATTAAATCCAAAAGCAAATCGTGAAAAGATG
ACACAAATTATGTTCGAGACATTCAACACACCAGCTATCGTGATTTGACAGATTATTTGA
TGAAAATCTTAACCGAACGTGGATACTCATTCACAACCACTGCCGAACGTGAAATTGTTC
GTGATATCAAAGAAAAATTGTGCTATGTTGCACTTGACTTTGAACAAGAAATGGCAACAG
CTGCTTCATCAAGCTCATTGGAGAAATCATATGAATTGCCTGATGGACAAGTCATCACAA
TCGGAAATGAACGATTCCGTTGTCCAGAAGCATTGTTCCAGCCATCATTCTTGGGTATGG
AAGCATGTGGTATTCACGAGACAACATACAATTCAATCATGAAGTGTGACGTTGATATCC
GTAAAGACTTGTATGCCAACACAGTCTTGTCAGGTGGCACAACAATGTACCCAGGTATCG
CTGATCGTATGCAAAAGGAAATTACAGCATTAGCTCCATCAACAATGAAGATCAAAATTA
TTGCACCACCAGAACGTAAATACTCAGTCTGGATCGGAGGTTCAATTTTGGCATCGCTCT
CAACCTTCCAACAAATGTGGATCAGCAAACAAGAATATGATGAATCAGGCCCATCAATTG
TCCACAGAAAATGCTTCTAAATTAATTATAATTGTAATCAATTACCACCTTTAAGTCGTC
GACATCAAGATCTTCAACCACAGAAACTCAAAAGACAATTGCATTTTTCACAGTTGAAAT
TCCATTCATTACATTCCACCACTTACAACATCAACTTTAAGAAAACATGTATTGTCAAAA
ATATTTTTTGCTCTTTTCTTTTCTATTATGAAAACAACATTTAAATTTAATTTAATTATT
ATATTACACTACTTTCTCAAAGATCATGAATTTATCACTCAAAAAAAAAAAATGTGCAGA
AAATGAATAAAAAGAAAAAGCTTCA
>g14309.t13 Gene=g14309 Length=186
MKILTERGYSFTTTAEREIVRDIKEKLCYVALDFEQEMATAASSSSLEKSYELPDGQVIT
IGNERFRCPEALFQPSFLGMEACGIHETTYNSIMKCDVDIRKDLYANTVLSGGTTMYPGI
ADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWISKQEYDESGPSI
VHRKCF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g14309.t13 | Gene3D | G3DSA:3.90.640.10 | Actin; Chain A | 1 | 85 | 2.8E-89 |
| 9 | g14309.t13 | Gene3D | G3DSA:3.30.420.40 | - | 86 | 148 | 2.8E-89 |
| 8 | g14309.t13 | Gene3D | G3DSA:3.30.420.40 | - | 149 | 182 | 2.8E-89 |
| 2 | g14309.t13 | PANTHER | PTHR11937 | ACTIN | 1 | 185 | 3.0E-120 |
| 3 | g14309.t13 | PANTHER | PTHR11937:SF470 | ACTIN-2 | 1 | 185 | 3.0E-120 |
| 1 | g14309.t13 | Pfam | PF00022 | Actin | 6 | 186 | 7.6E-71 |
| 6 | g14309.t13 | ProSitePatterns | PS00432 | Actins signature 2. | 167 | 175 | - |
| 5 | g14309.t13 | SMART | SM00268 | actin_3 | 1 | 186 | 1.2E-26 |
| 4 | g14309.t13 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 1 | 186 | 4.72E-79 |
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.
