General information for g10322.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Actin-related protein 2/3 complex subunit 1A-B.
Parent gene
- The parent gene g10322 is located on chr_1: 8917997..8918481 (- 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 | g10322 | g10322.t1 | TTS | g10322.t1 | 8917079 | 8917079 |
| chr_1 | g10322 | g10322.t1 | isoform | g10322.t1 | 8917169 | 8918345 |
| chr_1 | g10322 | g10322.t1 | exon | g10322.t1.exon1 | 8917169 | 8917886 |
| chr_1 | g10322 | g10322.t1 | cds | g10322.t1.CDS1 | 8917169 | 8917886 |
| chr_1 | g10322 | g10322.t1 | exon | g10322.t1.exon2 | 8917942 | 8918345 |
| chr_1 | g10322 | g10322.t1 | cds | g10322.t1.CDS2 | 8917942 | 8918345 |
| chr_1 | g10322 | g10322.t1 | TSS | g10322.t1 | 8918592 | 8918592 |
Sequences
>g10322.t1 Gene=g10322 Length=1122
ATGACTGAAAAGTTCTTTTTTGGTGGATCAGTAAGTCCAATTACTTGCCATGCATGGAAT
AAGGACCGCTCTCAAATCGCATTATCTCCTAATAACAATGAAGTCCATATCTACCAAAGA
GATGGGAATGACTGGAAGTTGACTGATGTGCTTAATCAGCACGATTTAAAAGTTAATGGA
ATCGATTGGGCACCAAATACAAATCGAATAGTTACATGTTCTGTCGATCGAAATGCTTAT
GTATGGACTCAAGGAGAAGATAAAAAATGGAAGCCTGCTTTGGTTTTGTTGCGCATAAAT
AGAGCTGCAACTTGTGTCAAATGGTCTCCTTGCGAGAATAAATTTGCAACTGGCTCGGGT
GCTCGTTTGATTTCTGTATGTTATTTTGAGGAAGAGAATGATTGGTGGGTATCAAAGCAT
ATAAAAAAACCAATCCGTAGTACTGTAACTTCTATTGATTGGCATCCTAACAATGTATTG
TTAGTTGCGGGCTCAACGGATTATAAGGTTCGTGTATTCAGTGCTTACATCAAAGACATT
GAACCTCAACCAACCGCAACTCCTTGGGGCAAGAAAATGCCTTTGGGTCAATTAATGGCC
GAATTCAAAAATTCTGGAACCGGTGGTGGTTGGATTCATTCAGTTAGCTTTTCTAGCGAC
GGAAATCGTATATGCTGGGTAGGACATGATTCTGCAATTAATATGGTCGATGCAAATAGT
GGAATGAATGTTATTAAGGTAAAGACGGAATATTTGCCATTTCTGAGTTCTGTATGGATA
TCACCAACTGCAGTGGTTGTCGCAGGTCATTCTTGCGTTCCGTTAATTTATTCATTTGAC
GGATCGACAATAATTTTTAATGGAAAATTGGATGAATCACAAAAAAGAGAAGCGGGAGGC
ATATCAGCAATGAGACATTTCAAATTACTTGATAGCAATTCTCGTTTAGAGAACTCTGAT
ACTCTTCTTGATTGTATTCATCAAAATGCTATTAGCTGGGTCGCAATTTATGGTGGTGAT
AAGAGTAATGCTACAAAAATTAGTACTTCTGGCTTAGATGGACAACTTGTCATATGGGAT
TTAAATACTCTAACTCGTTCTATGCAAAACTTGAAGATTTAA
>g10322.t1 Gene=g10322 Length=373
MTEKFFFGGSVSPITCHAWNKDRSQIALSPNNNEVHIYQRDGNDWKLTDVLNQHDLKVNG
IDWAPNTNRIVTCSVDRNAYVWTQGEDKKWKPALVLLRINRAATCVKWSPCENKFATGSG
ARLISVCYFEEENDWWVSKHIKKPIRSTVTSIDWHPNNVLLVAGSTDYKVRVFSAYIKDI
EPQPTATPWGKKMPLGQLMAEFKNSGTGGGWIHSVSFSSDGNRICWVGHDSAINMVDANS
GMNVIKVKTEYLPFLSSVWISPTAVVVAGHSCVPLIYSFDGSTIIFNGKLDESQKREAGG
ISAMRHFKLLDSNSRLENSDTLLDCIHQNAISWVAIYGGDKSNATKISTSGLDGQLVIWD
LNTLTRSMQNLKI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10322.t1 | Gene3D | G3DSA:2.130.10.10 | - | 9 | 361 | 6.3E-151 |
| 3 | g10322.t1 | PANTHER | PTHR10709 | ACTIN-RELATED PROTEIN 2/3 COMPLEX SUBUNIT 1 | 11 | 373 | 3.8E-147 |
| 4 | g10322.t1 | PANTHER | PTHR10709:SF11 | ACTIN-RELATED PROTEIN 2/3 COMPLEX SUBUNIT 1A | 11 | 373 | 3.8E-147 |
| 7 | g10322.t1 | PIRSF | PIRSF038093 | ARPC1 | 1 | 366 | 1.1E-158 |
| 1 | g10322.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 46 | 82 | 0.0056 |
| 2 | g10322.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 144 | 173 | 6.4E-4 |
| 8 | g10322.t1 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 347 | 361 | - |
| 14 | g10322.t1 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 7 | 183 | 11.234 |
| 15 | g10322.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 51 | 82 | 10.843 |
| 10 | g10322.t1 | SMART | SM00320 | WD40_4 | 44 | 83 | 1.8E-5 |
| 13 | g10322.t1 | SMART | SM00320 | WD40_4 | 89 | 128 | 3.5 |
| 9 | g10322.t1 | SMART | SM00320 | WD40_4 | 138 | 174 | 0.037 |
| 12 | g10322.t1 | SMART | SM00320 | WD40_4 | 195 | 237 | 2.3 |
| 11 | g10322.t1 | SMART | SM00320 | WD40_4 | 318 | 360 | 26.0 |
| 5 | g10322.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 5 | 365 | 1.28E-47 |
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:0030833 | regulation of actin filament polymerization | BP |
| GO:0005885 | Arp2/3 protein complex | CC |
| GO:0034314 | Arp2/3 complex-mediated actin nucleation | BP |
| GO:0005515 | protein binding | MF |
| GO:0015629 | actin cytoskeleton | CC |
KEGG
Orthology
- This transcript has been annotated with K05757 (actin related protein 2/3 complex, subunit 1A/1B)
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.
