General information for g4079.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Actin-related protein 10.
Parent gene
- The parent gene g4079 is located on chr_3: 30467713..30468941 (- 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_3 | g4079 | g4079.t1 | TTS | g4079.t1 | 30467638 | 30467638 |
| chr_3 | g4079 | g4079.t1 | isoform | g4079.t1 | 30467713 | 30468941 |
| chr_3 | g4079 | g4079.t1 | exon | g4079.t1.exon1 | 30467713 | 30468610 |
| chr_3 | g4079 | g4079.t1 | cds | g4079.t1.CDS1 | 30467713 | 30468610 |
| chr_3 | g4079 | g4079.t1 | exon | g4079.t1.exon2 | 30468670 | 30468804 |
| chr_3 | g4079 | g4079.t1 | cds | g4079.t1.CDS2 | 30468670 | 30468804 |
| chr_3 | g4079 | g4079.t1 | exon | g4079.t1.exon3 | 30468871 | 30468941 |
| chr_3 | g4079 | g4079.t1 | cds | g4079.t1.CDS3 | 30468871 | 30468941 |
| chr_3 | g4079 | g4079.t1 | TSS | g4079.t1 | 30469014 | 30469014 |
Sequences
>g4079.t1 Gene=g4079 Length=1104
ATGCCACTTTTTGAGACAGTATTTCAAGAGAAACCGACGATTGTGTTAGAAATTGGATCC
GCATATTCAAAAATTGGTTTTTCTGCAGAAGCTTATCCAAGATTTATTATTTCGACAGAA
ATAGAATCTATCAAAGATGTACTCAAGAGTAAAGAAAAGAACATTTATGATCAAACAGTT
GACTTTTTCAACAAAATTTTCTTCAACTACTTGCTTGTCAGTCCAAAAGATCGAAAAATA
TCGATAGTAGAATCAGTATTAACGCCAACAATCATTCGAGAGTGTTTTGCAAAAGTGCTT
TTTCAACATTATGAAGTAGCATCTGTAATTTTCTTACCACTGCATTTAGTCTCTATTTCT
ACACTTGCTCTTGACACTGCTCTTGTTGTTGATTTGGGCTATAAAGAAGCCGTTGTGATC
CCGGTTTATTCTGGAGTTCAAGTTATTAATGCATGGCAAGCACAACCACTCGCTGCTGAA
GCAGTTCATGATGAAATTAAATCAAATTTAATTCTCAATGGTGTCAAGGAAGAAATTCTA
TCTGAAAGAATAATAGAAGATATCAAAGTTCGTACTTGTTTTGTAACAAAAATGTCAAGA
GCTTTGTCTTATCGAAATAATGAACAGTTGCAAGCTGCACCTGATGTAGAATATCCAATT
GAAGGATCTGATGTTATTAAAATACCTGGTCTCTTACGAGAAATGGCTTTTGAAGCTTTA
TTTCCTGAAGATAATGACTTCATGGGATTGCCTTATATAATAATTGATGCAATTTTGAAA
TGTCCTGTTGATGCGAGAAAGGAGCTTGCTGAAAATATTTTACTTATCGGAGGGACATCG
AGTGTACTTGGTATTAAAGTTCGTTTGCGTGACGAATTGAGGAAGTTATTGAAATCAGAT
ATTTATAAAGATCGATTATATATCGATGATGTTAAATTTCATAGTGCTCCAGCAAAACCC
AATTTCACTGCATGGCTTGGAGGATCAATTTATTCTCATACAGATCTTATTTCAAACTCA
ATCACCCGAGAAAGTTATTTTAAACATCCACGCATTCCCGACTGGACAACATATGATAGC
TCTATAACTCGCTCACAAGGATGA
>g4079.t1 Gene=g4079 Length=367
MPLFETVFQEKPTIVLEIGSAYSKIGFSAEAYPRFIISTEIESIKDVLKSKEKNIYDQTV
DFFNKIFFNYLLVSPKDRKISIVESVLTPTIIRECFAKVLFQHYEVASVIFLPLHLVSIS
TLALDTALVVDLGYKEAVVIPVYSGVQVINAWQAQPLAAEAVHDEIKSNLILNGVKEEIL
SERIIEDIKVRTCFVTKMSRALSYRNNEQLQAAPDVEYPIEGSDVIKIPGLLREMAFEAL
FPEDNDFMGLPYIIIDAILKCPVDARKELAENILLIGGTSSVLGIKVRLRDELRKLLKSD
IYKDRLYIDDVKFHSAPAKPNFTAWLGGSIYSHTDLISNSITRESYFKHPRIPDWTTYDS
SITRSQG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g4079.t1 | Gene3D | G3DSA:3.30.420.40 | - | 14 | 349 | 0 |
| 9 | g4079.t1 | Gene3D | G3DSA:3.30.420.40 | - | 115 | 323 | 0 |
| 7 | g4079.t1 | Gene3D | G3DSA:3.90.640.10 | Actin; Chain A | 157 | 247 | 0 |
| 2 | g4079.t1 | PANTHER | PTHR11937:SF14 | ACTIN-RELATED PROTEIN 10 | 9 | 358 | 0 |
| 3 | g4079.t1 | PANTHER | PTHR11937 | ACTIN | 9 | 358 | 0 |
| 1 | g4079.t1 | Pfam | PF00022 | Actin | 57 | 346 | 0 |
| 6 | g4079.t1 | SMART | SM00268 | actin_3 | 11 | 362 | 0 |
| 5 | g4079.t1 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 10 | 130 | 0 |
| 4 | g4079.t1 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 126 | 349 | 0 |
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 transcript has been annotated with K16576 (actin-related protein 10)
Pathway
- This transcript belongs to the following pathways
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.
