General information for g14309.t20
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.t20 | TTS | g14309.t20 | 36551672 | 36551672 |
| chr_1 | g14309 | g14309.t20 | isoform | g14309.t20 | 36551833 | 36554119 |
| chr_1 | g14309 | g14309.t20 | exon | g14309.t20.exon1 | 36551833 | 36552988 |
| chr_1 | g14309 | g14309.t20 | cds | g14309.t20.CDS1 | 36551932 | 36552930 |
| chr_1 | g14309 | g14309.t20 | exon | g14309.t20.exon2 | 36553972 | 36554119 |
| chr_1 | g14309 | g14309.t20 | TSS | g14309.t20 | 36554119 | 36554119 |
Sequences
>g14309.t20 Gene=g14309 Length=1304
ACTTTGAATTGAGTTGTTGAAGAGTTTAGACGTTTTCTGTGAACGGTCTTTTGAATCATT
TTTTCCAATAAAAAATTAATTAAATCAATAGTGCTGTGTTTTAAAATTGCCGTAAAAGCA
TTCTCAAATCACCAATACTTTCTTTATTTGATGCACCACGTGCCGTTTTCCCATCAATTG
TCGGTCGTCCACGTCATCAAGGCGTTATGGTCGGTATGGGACAAAAGGACTCATATGTTG
GTGATGAGGCTCAAAGCAAAAGAGGTATTCTTACCTTGAAATATCCAATTGAACACGGTA
TTGTTACAAACTGGGATGATATGGAAAAGATCTGGCATCATACTTTCTACAATGAACTCC
GTGTTGCACCTGAAGAACATCCAGTCTTGCTTACCGAAGCTCCATTAAATCCAAAAGCAA
ATCGTGAAAAGATGACACAAATTATGTTCGAGACATTCAACACACCAGCTATGTATGTTG
CAATTCAAGCTGTCCTCTCATTGTATGCCTCAGGTCGTACAACTGGTATTGTTTTGGATT
CTGGTGATGGTGTTTCACACACAGTTCCAATTTACGAAGGTTATGCTTTGCCACATGCTA
TCCTTCGTCTTGATTTGGCCGGTCGTGATTTGACAGATTATTTGATGAAAATCTTAACCG
AACGTGGATACTCATTCACAACCACTGCCGAACGTGAAATTGTTCGTGATATCAAAGAAA
AATTGTGCTATGTTGCACTTGACTTTGAACAAGAAATGGCAACAGCTGCTTCATCAAGCT
CATTGGAGAAATCATATGAATTGCCTGATGGACAAGTCATCACAATCGGAAATGAACGAT
TCCGTTGTCCAGAAGCATTGTTCCAGCCATCATTCTTGGGTATGGAAGCATGTGGTATTC
ACGAGACAACATACAATTCAATCATGAAGTGTGACGTTGATATCCGTAAAGACTTGTATG
CCAACACAGTCTTGTCAGGTGGCACAACAATGTACCCAGGTATCGCTGATCGTATGCAAA
AGGAAATTACAGCATTAGCTCCATCAACAATGAAGATCAAAATTATTGCACCACCAGAAC
GTAAATACTCAGTCTGGATCGGAGGTTCAATTTTGGCATCGCTCTCAACCTTCCAACAAA
TGTGGATCAGCAAACAAGAATATGATGAATCAGGCCCATCAATTGTCCACAGAAAATGCT
TCTAAATTAATTATAATTGTAATCAATTACCACCTTTAAGTCGTCGACATCAAGATCTTC
AACCACAGAAACTCAAAAGACAATTGCATTTTTCACAGTTGAAA
>g14309.t20 Gene=g14309 Length=332
MVGMGQKDSYVGDEAQSKRGILTLKYPIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPV
LLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAVLSLYASGRTTGIVLDSGDGVSHTV
PIYEGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAEREIVRDIKEKLCYVALDF
EQEMATAASSSSLEKSYELPDGQVITIGNERFRCPEALFQPSFLGMEACGIHETTYNSIM
KCDVDIRKDLYANTVLSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGG
SILASLSTFQQMWISKQEYDESGPSIVHRKCF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g14309.t20 | CDD | cd00012 | NBD_sugar-kinase_HSP70_actin | 31 | 138 | 4.89985E-17 |
| 13 | g14309.t20 | Gene3D | G3DSA:3.30.420.40 | - | 1 | 328 | 6.1E-172 |
| 12 | g14309.t20 | Gene3D | G3DSA:3.30.420.40 | - | 95 | 295 | 6.1E-172 |
| 11 | g14309.t20 | Gene3D | G3DSA:3.90.640.10 | Actin; Chain A | 137 | 229 | 6.1E-172 |
| 2 | g14309.t20 | PANTHER | PTHR11937 | ACTIN | 1 | 331 | 9.0E-227 |
| 3 | g14309.t20 | PANTHER | PTHR11937:SF192 | ACTIN, CYTOPLASMIC 1 | 1 | 331 | 9.0E-227 |
| 7 | g14309.t20 | PRINTS | PR00190 | Actin signature | 6 | 17 | 1.9E-51 |
| 4 | g14309.t20 | PRINTS | PR00190 | Actin signature | 18 | 40 | 1.9E-51 |
| 6 | g14309.t20 | PRINTS | PR00190 | Actin signature | 72 | 85 | 1.9E-51 |
| 8 | g14309.t20 | PRINTS | PR00190 | Actin signature | 97 | 116 | 1.9E-51 |
| 5 | g14309.t20 | PRINTS | PR00190 | Actin signature | 193 | 209 | 1.9E-51 |
| 1 | g14309.t20 | Pfam | PF00022 | Actin | 7 | 332 | 1.5E-132 |
| 17 | g14309.t20 | ProSitePatterns | PS00406 | Actins signature 1. | 10 | 20 | - |
| 16 | g14309.t20 | ProSitePatterns | PS01132 | Actins and actin-related proteins signature. | 61 | 73 | - |
| 15 | g14309.t20 | ProSitePatterns | PS00432 | Actins signature 2. | 313 | 321 | - |
| 18 | g14309.t20 | SMART | SM00268 | actin_3 | 1 | 332 | 1.5E-198 |
| 9 | g14309.t20 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 1 | 110 | 9.07E-47 |
| 10 | g14309.t20 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 104 | 332 | 1.47E-100 |
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.
