General information for g14309.t21
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.t21 | TTS | g14309.t21 | 36551672 | 36551672 |
| chr_1 | g14309 | g14309.t21 | isoform | g14309.t21 | 36551873 | 36554119 |
| chr_1 | g14309 | g14309.t21 | exon | g14309.t21.exon1 | 36551873 | 36552848 |
| chr_1 | g14309 | g14309.t21 | cds | g14309.t21.CDS1 | 36551932 | 36552848 |
| chr_1 | g14309 | g14309.t21 | exon | g14309.t21.exon2 | 36552924 | 36553070 |
| chr_1 | g14309 | g14309.t21 | cds | g14309.t21.CDS2 | 36552924 | 36553062 |
| chr_1 | g14309 | g14309.t21 | exon | g14309.t21.exon3 | 36553948 | 36554119 |
| chr_1 | g14309 | g14309.t21 | TSS | g14309.t21 | 36554119 | 36554119 |
Sequences
>g14309.t21 Gene=g14309 Length=1295
ACTTTGAATTGAGTTGTTGAAGAGTTTAGACGTTTTCTGTGAACGGTCTTTTGAATCATT
TTTTCCAATAAAAAATTAATTAAATCAATAGTGCTGTGTTTTAAAATTGCCGTAAAAGCA
TTCTCAAATCACCAATACTTTCTTTATTGTGAAATTTAAGGACTAAAACAAGAAATCAAA
ATGTGTGACGAAGAAGTTGCTGCATTGGTCGTTGACAATGGATCAGGAATGTGCAAAGCC
GGTTTTGCTGGTGATGATGCACCACGTGCCGTTTTCCCATCAATTGTCGGTCGTCCACGT
CATCAAGGCGTTATGGTCGTTGAACACGGTATTGTTACAAACTGGGATGATATGGAAAAG
ATCTGGCATCATACTTTCTACAATGAACTCCGTGTTGCACCTGAAGAACATCCAGTCTTG
CTTACCGAAGCTCCATTAAATCCAAAAGCAAATCGTGAAAAGATGACACAAATTATGTTC
GAGACATTCAACACACCAGCTATGTATGTTGCAATTCAAGCTGTCCTCTCATTGTATGCC
TCAGGTCGTACAACTGGTATTGTTTTGGATTCTGGTGATGGTGTTTCACACACAGTTCCA
ATTTACGAAGGTTATGCTTTGCCACATGCTATCCTTCGTCTTGATTTGGCCGGTCGTGAT
TTGACAGATTATTTGATGAAAATCTTAACCGAACGTGGATACTCATTCACAACCACTGCC
GAACGTGAAATTGTTCGTGATATCAAAGAAAAATTGTGCTATGTTGCACTTGACTTTGAA
CAAGAAATGGCAACAGCTGCTTCATCAAGCTCATTGGAGAAATCATATGAATTGCCTGAT
GGACAAGTCATCACAATCGGAAATGAACGATTCCGTTGTCCAGAAGCATTGTTCCAGCCA
TCATTCTTGGGTATGGAAGCATGTGGTATTCACGAGACAACATACAATTCAATCATGAAG
TGTGACGTTGATATCCGTAAAGACTTGTATGCCAACACAGTCTTGTCAGGTGGCACAACA
ATGTACCCAGGTATCGCTGATCGTATGCAAAAGGAAATTACAGCATTAGCTCCATCAACA
ATGAAGATCAAAATTATTGCACCACCAGAACGTAAATACTCAGTCTGGATCGGAGGTTCA
ATTTTGGCATCGCTCTCAACCTTCCAACAAATGTGGATCAGCAAACAAGAATATGATGAA
TCAGGCCCATCAATTGTCCACAGAAAATGCTTCTAAATTAATTATAATTGTAATCAATTA
CCACCTTTAAGTCGTCGACATCAAGATCTTCAACC
>g14309.t21 Gene=g14309 Length=351
MCDEEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVVEHGIVTNWDDMEK
IWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAVLSLYA
SGRTTGIVLDSGDGVSHTVPIYEGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTA
EREIVRDIKEKLCYVALDFEQEMATAASSSSLEKSYELPDGQVITIGNERFRCPEALFQP
SFLGMEACGIHETTYNSIMKCDVDIRKDLYANTVLSGGTTMYPGIADRMQKEITALAPST
MKIKIIAPPERKYSVWIGGSILASLSTFQQMWISKQEYDESGPSIVHRKCF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g14309.t21 | CDD | cd00012 | NBD_sugar-kinase_HSP70_actin | 9 | 157 | 1.49983E-23 |
| 13 | g14309.t21 | Gene3D | G3DSA:3.30.420.40 | - | 3 | 46 | 2.8E-16 |
| 15 | g14309.t21 | Gene3D | G3DSA:3.30.420.40 | - | 47 | 347 | 1.7E-159 |
| 14 | g14309.t21 | Gene3D | G3DSA:3.30.420.40 | - | 114 | 314 | 1.7E-159 |
| 12 | g14309.t21 | Gene3D | G3DSA:3.90.640.10 | Actin; Chain A | 156 | 248 | 1.7E-159 |
| 2 | g14309.t21 | PANTHER | PTHR11937 | ACTIN | 3 | 46 | 5.7E-233 |
| 4 | g14309.t21 | PANTHER | PTHR11937:SF192 | ACTIN, CYTOPLASMIC 1 | 3 | 46 | 5.7E-233 |
| 3 | g14309.t21 | PANTHER | PTHR11937 | ACTIN | 47 | 350 | 5.7E-233 |
| 5 | g14309.t21 | PANTHER | PTHR11937:SF192 | ACTIN, CYTOPLASMIC 1 | 47 | 350 | 5.7E-233 |
| 6 | g14309.t21 | PRINTS | PR00190 | Actin signature | 18 | 29 | 1.9E-30 |
| 9 | g14309.t21 | PRINTS | PR00190 | Actin signature | 91 | 104 | 1.9E-30 |
| 7 | g14309.t21 | PRINTS | PR00190 | Actin signature | 116 | 135 | 1.9E-30 |
| 8 | g14309.t21 | PRINTS | PR00190 | Actin signature | 212 | 228 | 1.9E-30 |
| 1 | g14309.t21 | Pfam | PF00022 | Actin | 4 | 351 | 3.3E-138 |
| 18 | g14309.t21 | ProSitePatterns | PS01132 | Actins and actin-related proteins signature. | 80 | 92 | - |
| 17 | g14309.t21 | ProSitePatterns | PS00432 | Actins signature 2. | 332 | 340 | - |
| 19 | g14309.t21 | SMART | SM00268 | actin_3 | 6 | 351 | 1.4E-216 |
| 11 | g14309.t21 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 5 | 129 | 4.86E-55 |
| 10 | g14309.t21 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 123 | 351 | 1.81E-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.
