General information for g10194.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Actin-related protein 3.
Parent gene
- The parent gene g10194 is located on chr_1: 8165528..8166261 (+ 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 | g10194 | g10194.t5 | TSS | g10194.t5 | 8163978 | 8163978 |
| chr_1 | g10194 | g10194.t5 | isoform | g10194.t5 | 8164080 | 8166261 |
| chr_1 | g10194 | g10194.t5 | exon | g10194.t5.exon1 | 8164080 | 8164123 |
| chr_1 | g10194 | g10194.t5 | exon | g10194.t5.exon2 | 8164251 | 8165343 |
| chr_1 | g10194 | g10194.t5 | cds | g10194.t5.CDS1 | 8164531 | 8165343 |
| chr_1 | g10194 | g10194.t5 | exon | g10194.t5.exon3 | 8165407 | 8165490 |
| chr_1 | g10194 | g10194.t5 | cds | g10194.t5.CDS2 | 8165407 | 8165490 |
| chr_1 | g10194 | g10194.t5 | exon | g10194.t5.exon4 | 8165553 | 8166261 |
| chr_1 | g10194 | g10194.t5 | cds | g10194.t5.CDS3 | 8165553 | 8165648 |
| chr_1 | g10194 | g10194.t5 | TTS | g10194.t5 | 8166263 | 8166263 |
Sequences
>g10194.t5 Gene=g10194 Length=1930
ATGACAGGAAGGCTTCCAGCTTGTGTAATTGATGTTGGTACCGGTTATACTAAATTAGGC
TACGCTGCTAATAAAGATCCACAATTTATCTTTCCATCTGCAATTGCCATCAAAGAGAGC
GCTCGTGTTGGTGACCAAACAGCTCGCAGAATAACAAAAGGTGTCGAAGATTTAGATTTT
TATATCGGCGATGAAGCATTTGATGCAACTGGATATGCAGTAAAGGTAAATAATGATTAT
TCATTTTGAAATTATGACATTATTATATGTTAATCATCATTTCAGTATCCTGTTCGTCAT
GGCTTAGTAGAAGATTGGGATTTAATGGAACGATTTTTGGAACAATGTATTTTCAAATAT
TTACGTGCTGAACCTGGAGATCATCATTTTTTGCTCACTGAACCACCACTCAACACACCC
GAAAATCGTGAATATACTGCCGAGATAATGTTTGAAACATTCAACGTTCCTGGGCTTTAT
ATCGCCGTACAAGCTGTGTTGGCACTGGCTGCCAGTTGGGCTTCTCGTCCTGTTGAAGAA
CGCACACTGACTGGAATTGTGATTGATAGTGGTGATGGTGTCACTCATGTCATTCCAGTT
GCCGAGGGCTATGTTATTGGATCTTGTATCAAGCATATTCCAATCGCTGGTCGAAACATT
ACCTCATTCATTCAAAGCTTATTACGAGAACGAGAGGTGGGCATTCCGCCTGAACAAAGT
CTTGAAACTGCCAAAGCAATTAAAGAACGTTTCTGTTACATATGTCCCGATATTGCAAAA
GAATTTGCAAAATATGATTCAGAACCATCGAAATGGATTAAGACTTATGAAGGTATCAAT
AGTATTACGAAGCAACAATTTAATGTTGATGTAGGATATGAAAGATTCCTTGGTCCAGAA
ATTTTCTTTCATCCTGAATTTTCAAATCCTGACTTTACTACGCCAATATCCGAAATTGTT
GATAATGTCATTCAAAATTGTCCGATCGATGTTCGACGACCATTGTATAATAATATTGTT
TTGAGCGGTGGCTCAACTATGTTTAGAGACTTTGGTAGACGCTTACAGCGTGATATTAAA
AGATCAGTTGATGCTCGACTAAGAATTAGTGAAAATTTAAGTGAGGGAAGAATTAAGCCC
AAACCCATTGATGTGAATGTCATTTCTCACCATATGCAACGTTATGCTGTTTGGTTCGGC
GGAAGCATGTTGGCGTCAACACCTGAATTTTATCAAGTTTGTCATACAAAAGCAGAATAC
GAGGAATATGGTCCTCGCATTTGCCGTTACAATGCAGTATTCGGTACAATGACGTAATTT
TTTTTGTTTGGTGGTCTTGTTTTACATATAGTATATCAACATCAACTTAGACATTCCTAC
TATTGCTGAGCTCAACATCAATCATCAAGAGACACGTTTATTCTATCATTGATAAAAGCT
GAAAATCTTTTTTCTATGAAAATTGTAAAATGCTTTAGAAGACTACCGCCAAATTAATTT
TTTTGGCGACTTATGAACAAATACAAACTTTTTATAATTTCTTTATTTAAAAAGTGAAAG
TAGGAAAAATAGTGAAAATGCCCCATTTGAAATTAAATATACTTATTTTAGCCATTTACT
ATCCCATAATAATCGTCCTTTAAAACTTCATTTTTTTATGTATAAGCAACCACAAAGTAT
ATAATATATTTTTTTGTTTCATTCAAAATTTCATTTCACTCTTTACAATATATATTAATC
ATAATTTTTTAAAATGATTCGCGTCTATAGTGAAACATGTTGCATTTCAATTTAAGTTTA
AATATTTTTTATATTATTTTAAATTTACAAGTACGCAAAAAAGAACTTTCCGTTTTCATT
CTCTTAAAGTGATTTTTTTTACTCAATAACTTCTTTTAAAAAAGTTTCAAATAAAGAATT
GTCTTTTGTC
>g10194.t5 Gene=g10194 Length=330
MERFLEQCIFKYLRAEPGDHHFLLTEPPLNTPENREYTAEIMFETFNVPGLYIAVQAVLA
LAASWASRPVEERTLTGIVIDSGDGVTHVIPVAEGYVIGSCIKHIPIAGRNITSFIQSLL
REREVGIPPEQSLETAKAIKERFCYICPDIAKEFAKYDSEPSKWIKTYEGINSITKQQFN
VDVGYERFLGPEIFFHPEFSNPDFTTPISEIVDNVIQNCPIDVRRPLYNNIVLSGGSTMF
RDFGRRLQRDIKRSVDARLRISENLSEGRIKPKPIDVNVISHHMQRYAVWFGGSMLASTP
EFYQVCHTKAEYEEYGPRICRYNAVFGTMT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g10194.t5 | CDD | cd00012 | NBD_sugar-kinase_HSP70_actin | 1 | 121 | 9.74742E-10 |
| 10 | g10194.t5 | Gene3D | G3DSA:3.30.420.40 | - | 1 | 317 | 2.8E-123 |
| 9 | g10194.t5 | Gene3D | G3DSA:3.30.420.40 | - | 57 | 298 | 2.8E-123 |
| 8 | g10194.t5 | Gene3D | G3DSA:3.90.640.10 | Actin; Chain A | 114 | 212 | 2.8E-123 |
| 2 | g10194.t5 | PANTHER | PTHR11937 | ACTIN | 1 | 321 | 2.9E-179 |
| 3 | g10194.t5 | PANTHER | PTHR11937:SF175 | ACTIN-RELATED PROTEIN 3 | 1 | 321 | 2.9E-179 |
| 1 | g10194.t5 | Pfam | PF00022 | Actin | 1 | 321 | 1.3E-68 |
| 7 | g10194.t5 | ProSitePatterns | PS01132 | Actins and actin-related proteins signature. | 23 | 35 | - |
| 6 | g10194.t5 | SMART | SM00268 | actin_3 | 1 | 325 | 7.0E-108 |
| 4 | g10194.t5 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 1 | 67 | 1.11E-20 |
| 5 | g10194.t5 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 74 | 326 | 5.93E-80 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0007015 | actin filament organization | BP |
| GO:0005885 | Arp2/3 protein complex | CC |
| GO:0034314 | Arp2/3 complex-mediated actin nucleation | BP |
| GO:0005524 | ATP binding | MF |
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.
