General information for g14309.t12
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.t12 | TTS | g14309.t12 | 36551615 | 36551615 |
| chr_1 | g14309 | g14309.t12 | isoform | g14309.t12 | 36551627 | 36553070 |
| chr_1 | g14309 | g14309.t12 | exon | g14309.t12.exon1 | 36551627 | 36552761 |
| chr_1 | g14309 | g14309.t12 | cds | g14309.t12.CDS1 | 36551932 | 36552705 |
| chr_1 | g14309 | g14309.t12 | exon | g14309.t12.exon2 | 36552835 | 36553070 |
| chr_1 | g14309 | g14309.t12 | TSS | g14309.t12 | NA | NA |
Sequences
>g14309.t12 Gene=g14309 Length=1371
AAATCAAAATGTGTGACGAAGAAGTTGCTGCATTGGTCGTTGACAATGGATCAGGAATGT
GCAAAGCCGGTTTTGCTGGTGATGATGCACCACGTGCCGTTTTCCCATCAATTGTCGGTC
GTCCACGTCATCAAGGCGTTATGGTCGGTATGGGACAAAAGGACTCATATGTTGGTGATG
AGGCTCAAAGCAAAAGAGGTATTCTTACCTTGAAATATCCAATTGAACACGGTATTAACA
TCCAGTCTTGCTTACCGAAGCTCCATTAAATCCAAAAGCAAATCGTGAAAAGATGACACA
AATTATGTTCGAGACATTCAACACACCAGCTATGTATGTTGCAATTCAAGCTGTCCTCTC
ATTGTATGCCTCAGGTCGTACAACTGGTATTGTTTTGGATTCTGGTGATGGTGTTTCACA
CACAGTTCCAATTTACGAAGGTTATGCTTTGCCACATGCTATCCTTCGTCTTGATTTGGC
CGGTCGTGATTTGACAGATTATTTGATGAAAATCTTAACCGAACGTGGATACTCATTCAC
AACCACTGCCGAACGTGAAATTGTTCGTGATATCAAAGAAAAATTGTGCTATGTTGCACT
TGACTTTGAACAAGAAATGGCAACAGCTGCTTCATCAAGCTCATTGGAGAAATCATATGA
ATTGCCTGATGGACAAGTCATCACAATCGGAAATGAACGATTCCGTTGTCCAGAAGCATT
GTTCCAGCCATCATTCTTGGGTATGGAAGCATGTGGTATTCACGAGACAACATACAATTC
AATCATGAAGTGTGACGTTGATATCCGTAAAGACTTGTATGCCAACACAGTCTTGTCAGG
TGGCACAACAATGTACCCAGGTATCGCTGATCGTATGCAAAAGGAAATTACAGCATTAGC
TCCATCAACAATGAAGATCAAAATTATTGCACCACCAGAACGTAAATACTCAGTCTGGAT
CGGAGGTTCAATTTTGGCATCGCTCTCAACCTTCCAACAAATGTGGATCAGCAAACAAGA
ATATGATGAATCAGGCCCATCAATTGTCCACAGAAAATGCTTCTAAATTAATTATAATTG
TAATCAATTACCACCTTTAAGTCGTCGACATCAAGATCTTCAACCACAGAAACTCAAAAG
ACAATTGCATTTTTCACAGTTGAAATTCCATTCATTACATTCCACCACTTACAACATCAA
CTTTAAGAAAACATGTATTGTCAAAAATATTTTTTGCTCTTTTCTTTTCTATTATGAAAA
CAACATTTAAATTTAATTTAATTATTATATTACACTACTTTCTCAAAGATCATGAATTTA
TCACTCAAAAAAAAAAAATGTGCAGAAAATGAATAAAAAGAAAAAGCTTCA
>g14309.t12 Gene=g14309 Length=257
MTQIMFETFNTPAMYVAIQAVLSLYASGRTTGIVLDSGDGVSHTVPIYEGYALPHAILRL
DLAGRDLTDYLMKILTERGYSFTTTAEREIVRDIKEKLCYVALDFEQEMATAASSSSLEK
SYELPDGQVITIGNERFRCPEALFQPSFLGMEACGIHETTYNSIMKCDVDIRKDLYANTV
LSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWIS
KQEYDESGPSIVHRKCF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g14309.t12 | CDD | cd00012 | NBD_sugar-kinase_HSP70_actin | 2 | 63 | 3.66127E-7 |
| 8 | g14309.t12 | Gene3D | G3DSA:3.30.420.520 | - | 5 | 228 | 6.0E-124 |
| 10 | g14309.t12 | Gene3D | G3DSA:3.30.420.40 | - | 19 | 222 | 6.0E-124 |
| 9 | g14309.t12 | Gene3D | G3DSA:3.90.640.10 | Actin; Chain A | 62 | 151 | 6.0E-124 |
| 2 | g14309.t12 | PANTHER | PTHR11937 | ACTIN | 1 | 256 | 7.0E-173 |
| 3 | g14309.t12 | PANTHER | PTHR11937:SF470 | ACTIN-2 | 1 | 256 | 7.0E-173 |
| 4 | g14309.t12 | PRINTS | PR00190 | Actin signature | 22 | 41 | 6.6E-21 |
| 5 | g14309.t12 | PRINTS | PR00190 | Actin signature | 118 | 134 | 6.6E-21 |
| 1 | g14309.t12 | Pfam | PF00022 | Actin | 1 | 257 | 2.4E-102 |
| 12 | g14309.t12 | ProSitePatterns | PS00432 | Actins signature 2. | 238 | 246 | - |
| 13 | g14309.t12 | SMART | SM00268 | actin_3 | 1 | 257 | 1.9E-111 |
| 7 | g14309.t12 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 1 | 35 | 1.07E-10 |
| 6 | g14309.t12 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 29 | 257 | 6.31E-101 |
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.
