General information for g14309.t5
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.t5 | isoform | g14309.t5 | 36551443 | 36554027 |
| chr_1 | g14309 | g14309.t5 | exon | g14309.t5.exon1 | 36551443 | 36552572 |
| chr_1 | g14309 | g14309.t5 | cds | g14309.t5.CDS1 | 36551932 | 36552572 |
| chr_1 | g14309 | g14309.t5 | exon | g14309.t5.exon2 | 36552714 | 36553070 |
| chr_1 | g14309 | g14309.t5 | cds | g14309.t5.CDS2 | 36552714 | 36553062 |
| chr_1 | g14309 | g14309.t5 | exon | g14309.t5.exon3 | 36553948 | 36554027 |
| chr_1 | g14309 | g14309.t5 | TSS | g14309.t5 | 36554119 | 36554119 |
| chr_1 | g14309 | g14309.t5 | TTS | g14309.t5 | NA | NA |
Sequences
>g14309.t5 Gene=g14309 Length=1567
GCTGTGTTTTAAAATTGCCGTAAAAGCATTCTCAAATCACCAATACTTTCTTTATTGTGA
AATTTAAGGACTAAAACAAGAAATCAAAATGTGTGACGAAGAAGTTGCTGCATTGGTCGT
TGACAATGGATCAGGAATGTGCAAAGCCGGTTTTGCTGGTGATGATGCACCACGTGCCGT
TTTCCCATCAATTGTCGGTCGTCCACGTCATCAAGGCGTTATGGTCGGTATGGGACAAAA
GGACTCATATGTTGGTGATGAGGCTCAAAGCAAAAGAGGTATTCTTACCTTGAAATATCC
AATTGAACACGGTATTGTTACAAACTGGGATGATATGGAAAAGATCTGGCATCATACTTT
CTACAATGAACTCCGTGTTGCACCTGAAGAACATCCAGTCTTGCTTACCGAAGCTCCATT
AAATCCAAAAGCAAATCTTCCAATTTACGAAGGTTATGCTTTGCCACATGCTATCCTTCG
TCTTGATTTGGCCGGTCGTGATTTGACAGATTATTTGATGAAAATCTTAACCGAACGTGG
ATACTCATTCACAACCACTGCCGAACGTGAAATTGTTCGTGATATCAAAGAAAAATTGTG
CTATGTTGCACTTGACTTTGAACAAGAAATGGCAACAGCTGCTTCATCAAGCTCATTGGA
GAAATCATATGAATTGCCTGATGGACAAGTCATCACAATCGGAAATGAACGATTCCGTTG
TCCAGAAGCATTGTTCCAGCCATCATTCTTGGGTATGGAAGCATGTGGTATTCACGAGAC
AACATACAATTCAATCATGAAGTGTGACGTTGATATCCGTAAAGACTTGTATGCCAACAC
AGTCTTGTCAGGTGGCACAACAATGTACCCAGGTATCGCTGATCGTATGCAAAAGGAAAT
TACAGCATTAGCTCCATCAACAATGAAGATCAAAATTATTGCACCACCAGAACGTAAATA
CTCAGTCTGGATCGGAGGTTCAATTTTGGCATCGCTCTCAACCTTCCAACAAATGTGGAT
CAGCAAACAAGAATATGATGAATCAGGCCCATCAATTGTCCACAGAAAATGCTTCTAAAT
TAATTATAATTGTAATCAATTACCACCTTTAAGTCGTCGACATCAAGATCTTCAACCACA
GAAACTCAAAAGACAATTGCATTTTTCACAGTTGAAATTCCATTCATTACATTCCACCAC
TTACAACATCAACTTTAAGAAAACATGTATTGTCAAAAATATTTTTTGCTCTTTTCTTTT
CTATTATGAAAACAACATTTAAATTTAATTTAATTATTATATTACACTACTTTCTCAAAG
ATCATGAATTTATCACTCAAAAAAAAAAAATGTGCAGAAAATGAATAAAAAGAAAAAGCT
TCAAATTTCAAATTCATATAAAATTTTTCTTCTAATCTTCAATATAACGAAGAACAAAAA
ACAATTATTACTTAAAGTATTGAATGTAATGCACATTACTTACTCAACATATTTGTGAAA
AAAATTTCAGATTGCTACTTACTGAAAAAGAATAAAGACACATTTTCATTAAACATACAA
AACGCTT
>g14309.t5 Gene=g14309 Length=329
MCDEEVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQ
SKRGILTLKYPIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANLPIY
EGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAEREIVRDIKEKLCYVALDFEQE
MATAASSSSLEKSYELPDGQVITIGNERFRCPEALFQPSFLGMEACGIHETTYNSIMKCD
VDIRKDLYANTVLSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSIL
ASLSTFQQMWISKQEYDESGPSIVHRKCF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g14309.t5 | CDD | cd00012 | NBD_sugar-kinase_HSP70_actin | 9 | 137 | 3.60722E-7 |
| 14 | g14309.t5 | Gene3D | G3DSA:3.30.420.40 | - | 1 | 116 | 4.2E-56 |
| 15 | g14309.t5 | Gene3D | G3DSA:3.30.420.40 | - | 117 | 291 | 3.0E-103 |
| 12 | g14309.t5 | Gene3D | G3DSA:3.90.640.10 | Actin; Chain A | 140 | 228 | 3.0E-103 |
| 13 | g14309.t5 | Gene3D | G3DSA:3.30.420.40 | - | 292 | 325 | 3.0E-103 |
| 4 | g14309.t5 | PANTHER | PTHR11937 | ACTIN | 3 | 116 | 2.9E-216 |
| 6 | g14309.t5 | PANTHER | PTHR11937:SF192 | ACTIN, CYTOPLASMIC 1 | 3 | 116 | 2.9E-216 |
| 3 | g14309.t5 | PANTHER | PTHR11937 | ACTIN | 117 | 328 | 2.9E-216 |
| 5 | g14309.t5 | PANTHER | PTHR11937:SF192 | ACTIN, CYTOPLASMIC 1 | 117 | 328 | 2.9E-216 |
| 7 | g14309.t5 | PRINTS | PR00190 | Actin signature | 27 | 36 | 4.4E-23 |
| 8 | g14309.t5 | PRINTS | PR00190 | Actin signature | 50 | 61 | 4.4E-23 |
| 9 | g14309.t5 | PRINTS | PR00190 | Actin signature | 62 | 84 | 4.4E-23 |
| 2 | g14309.t5 | Pfam | PF00022 | Actin | 4 | 116 | 6.7E-38 |
| 1 | g14309.t5 | Pfam | PF00022 | Actin | 118 | 329 | 4.4E-81 |
| 18 | g14309.t5 | ProSitePatterns | PS00406 | Actins signature 1. | 54 | 64 | - |
| 17 | g14309.t5 | ProSitePatterns | PS00432 | Actins signature 2. | 310 | 318 | - |
| 19 | g14309.t5 | SMART | SM00268 | actin_3 | 6 | 329 | 3.7E-182 |
| 10 | g14309.t5 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 5 | 117 | 3.39E-48 |
| 11 | g14309.t5 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 118 | 329 | 3.61E-91 |
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.
