Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Actin-related protein 2/3 complex subunit 1A-A.

Parent gene

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.t3 TTS g10322.t3 8917079 8917079
chr_1 g10322 g10322.t3 isoform g10322.t3 8917169 8918345
chr_1 g10322 g10322.t3 exon g10322.t3.exon1 8917169 8917886
chr_1 g10322 g10322.t3 cds g10322.t3.CDS1 8917169 8917714
chr_1 g10322 g10322.t3 exon g10322.t3.exon2 8917938 8918345
chr_1 g10322 g10322.t3 TSS g10322.t3 8918592 8918592

Sequences

>g10322.t3 Gene=g10322 Length=1126
ATGACTGAAAAGTTCTTTTTTGGTGGATCAGTAAGTCCAATTACTTGCCATGCATGGAAT
AAGGACCGCTCTCAAATCGCATTATCTCCTAATAACAATGAAGTCCATATCTACCAAAGA
GATGGGAATGACTGGAAGTTGACTGATGTGCTTAATCAGCACGATTTAAAAGTTAATGGA
ATCGATTGGGCACCAAATACAAATCGAATAGTTACATGTTCTGTCGATCGAAATGCTTAT
GTATGGACTCAAGGAGAAGATAAAAAATGGAAGCCTGCTTTGGTTTTGTTGCGCATAAAT
AGAGCTGCAACTTGTGTCAAATGGTCTCCTTGCGAGAATAAATTTGCAACTGGCTCGGGT
GCTCGTTTGATTTCTGTATGTTATTTTGAGGAAGAGAATGATTGGTATGTGGGTATCAAA
GCATATAAAAAAACCAATCCGTAGTACTGTAACTTCTATTGATTGGCATCCTAACAATGT
ATTGTTAGTTGCGGGCTCAACGGATTATAAGGTTCGTGTATTCAGTGCTTACATCAAAGA
CATTGAACCTCAACCAACCGCAACTCCTTGGGGCAAGAAAATGCCTTTGGGTCAATTAAT
GGCCGAATTCAAAAATTCTGGAACCGGTGGTGGTTGGATTCATTCAGTTAGCTTTTCTAG
CGACGGAAATCGTATATGCTGGGTAGGACATGATTCTGCAATTAATATGGTCGATGCAAA
TAGTGGAATGAATGTTATTAAGGTAAAGACGGAATATTTGCCATTTCTGAGTTCTGTATG
GATATCACCAACTGCAGTGGTTGTCGCAGGTCATTCTTGCGTTCCGTTAATTTATTCATT
TGACGGATCGACAATAATTTTTAATGGAAAATTGGATGAATCACAAAAAAGAGAAGCGGG
AGGCATATCAGCAATGAGACATTTCAAATTACTTGATAGCAATTCTCGTTTAGAGAACTC
TGATACTCTTCTTGATTGTATTCATCAAAATGCTATTAGCTGGGTCGCAATTTATGGTGG
TGATAAGAGTAATGCTACAAAAATTAGTACTTCTGGCTTAGATGGACAACTTGTCATATG
GGATTTAAATACTCTAACTCGTTCTATGCAAAACTTGAAGATTTAA

>g10322.t3 Gene=g10322 Length=181
MPLGQLMAEFKNSGTGGGWIHSVSFSSDGNRICWVGHDSAINMVDANSGMNVIKVKTEYL
PFLSSVWISPTAVVVAGHSCVPLIYSFDGSTIIFNGKLDESQKREAGGISAMRHFKLLDS
NSRLENSDTLLDCIHQNAISWVAIYGGDKSNATKISTSGLDGQLVIWDLNTLTRSMQNLK
I

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g10322.t3 Gene3D G3DSA:2.130.10.10 - 1 181 2.2E-51
1 g10322.t3 PANTHER PTHR10709 ACTIN-RELATED PROTEIN 2/3 COMPLEX SUBUNIT 1 1 181 3.4E-45
2 g10322.t3 PANTHER PTHR10709:SF11 ACTIN-RELATED PROTEIN 2/3 COMPLEX SUBUNIT 1A 1 181 3.4E-45
4 g10322.t3 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 155 169 -
3 g10322.t3 SUPERFAMILY SSF69322 Tricorn protease domain 2 11 172 6.67E-13

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 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. There were no conditions that were differentially expressed