Gene loci information

Transcript annotation

  • This transcript has been annotated as Actin-related protein 3.

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 g10194 g10194.t4 TSS g10194.t4 8163978 8163978
chr_1 g10194 g10194.t4 isoform g10194.t4 8164080 8166009
chr_1 g10194 g10194.t4 exon g10194.t4.exon1 8164080 8164127
chr_1 g10194 g10194.t4 cds g10194.t4.CDS1 8164111 8164127
chr_1 g10194 g10194.t4 exon g10194.t4.exon2 8164251 8164431
chr_1 g10194 g10194.t4 cds g10194.t4.CDS2 8164251 8164431
chr_1 g10194 g10194.t4 exon g10194.t4.exon3 8164492 8165343
chr_1 g10194 g10194.t4 cds g10194.t4.CDS3 8164492 8165343
chr_1 g10194 g10194.t4 exon g10194.t4.exon4 8165407 8165490
chr_1 g10194 g10194.t4 cds g10194.t4.CDS4 8165407 8165490
chr_1 g10194 g10194.t4 exon g10194.t4.exon5 8165553 8166009
chr_1 g10194 g10194.t4 cds g10194.t4.CDS5 8165553 8165648
chr_1 g10194 g10194.t4 TTS g10194.t4 8166263 8166263

Sequences

>g10194.t4 Gene=g10194 Length=1622
ATGACAGGAAGGCTTCCAGCTTGTGTAATTGATGTTGGTACCGGGTAATTATACTAAATT
AGGCTACGCTGCTAATAAAGATCCACAATTTATCTTTCCATCTGCAATTGCCATCAAAGA
GAGCGCTCGTGTTGGTGACCAAACAGCTCGCAGAATAACAAAAGGTGTCGAAGATTTAGA
TTTTTATATCGGCGATGAAGCATTTGATGCAACTGGATATGCAGTAAAGTATCCTGTTCG
TCATGGCTTAGTAGAAGATTGGGATTTAATGGAACGATTTTTGGAACAATGTATTTTCAA
ATATTTACGTGCTGAACCTGGAGATCATCATTTTTTGCTCACTGAACCACCACTCAACAC
ACCCGAAAATCGTGAATATACTGCCGAGATAATGTTTGAAACATTCAACGTTCCTGGGCT
TTATATCGCCGTACAAGCTGTGTTGGCACTGGCTGCCAGTTGGGCTTCTCGTCCTGTTGA
AGAACGCACACTGACTGGAATTGTGATTGATAGTGGTGATGGTGTCACTCATGTCATTCC
AGTTGCCGAGGGCTATGTTATTGGATCTTGTATCAAGCATATTCCAATCGCTGGTCGAAA
CATTACCTCATTCATTCAAAGCTTATTACGAGAACGAGAGGTGGGCATTCCGCCTGAACA
AAGTCTTGAAACTGCCAAAGCAATTAAAGAACGTTTCTGTTACATATGTCCCGATATTGC
AAAAGAATTTGCAAAATATGATTCAGAACCATCGAAATGGATTAAGACTTATGAAGGTAT
CAATAGTATTACGAAGCAACAATTTAATGTTGATGTAGGATATGAAAGATTCCTTGGTCC
AGAAATTTTCTTTCATCCTGAATTTTCAAATCCTGACTTTACTACGCCAATATCCGAAAT
TGTTGATAATGTCATTCAAAATTGTCCGATCGATGTTCGACGACCATTGTATAATAATAT
TGTTTTGAGCGGTGGCTCAACTATGTTTAGAGACTTTGGTAGACGCTTACAGCGTGATAT
TAAAAGATCAGTTGATGCTCGACTAAGAATTAGTGAAAATTTAAGTGAGGGAAGAATTAA
GCCCAAACCCATTGATGTGAATGTCATTTCTCACCATATGCAACGTTATGCTGTTTGGTT
CGGCGGAAGCATGTTGGCGTCAACACCTGAATTTTATCAAGTTTGTCATACAAAAGCAGA
ATACGAGGAATATGGTCCTCGCATTTGCCGTTACAATGCAGTATTCGGTACAATGACGTA
ATTTTTTTTGTTTGGTGGTCTTGTTTTACATATAGTATATCAACATCAACTTAGACATTC
CTACTATTGCTGAGCTCAACATCAATCATCAAGAGACACGTTTATTCTATCATTGATAAA
AGCTGAAAATCTTTTTTCTATGAAAATTGTAAAATGCTTTAGAAGACTACCGCCAAATTA
ATTTTTTTGGCGACTTATGAACAAATACAAACTTTTTATAATTTCTTTATTTAAAAAGTG
AAAGTAGGAAAAATAGTGAAAATGCCCCATTTGAAATTAAATATACTTATTTTAGCCATT
TACTATCCCATAATAATCGTCCTTTAAAACTTCATTTTTTTATGTATAAGCAACCACAAA
GT

>g10194.t4 Gene=g10194 Length=409
MLVPGNYTKLGYAANKDPQFIFPSAIAIKESARVGDQTARRITKGVEDLDFYIGDEAFDA
TGYAVKYPVRHGLVEDWDLMERFLEQCIFKYLRAEPGDHHFLLTEPPLNTPENREYTAEI
MFETFNVPGLYIAVQAVLALAASWASRPVEERTLTGIVIDSGDGVTHVIPVAEGYVIGSC
IKHIPIAGRNITSFIQSLLREREVGIPPEQSLETAKAIKERFCYICPDIAKEFAKYDSEP
SKWIKTYEGINSITKQQFNVDVGYERFLGPEIFFHPEFSNPDFTTPISEIVDNVIQNCPI
DVRRPLYNNIVLSGGSTMFRDFGRRLQRDIKRSVDARLRISENLSEGRIKPKPIDVNVIS
HHMQRYAVWFGGSMLASTPEFYQVCHTKAEYEEYGPRICRYNAVFGTMT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g10194.t4 CDD cd00012 NBD_sugar-kinase_HSP70_actin 72 200 2.45143E-11
9 g10194.t4 Gene3D G3DSA:3.30.420.40 - 7 396 2.6E-144
10 g10194.t4 Gene3D G3DSA:3.30.420.40 - 136 377 2.6E-144
8 g10194.t4 Gene3D G3DSA:3.90.640.10 Actin; Chain A 193 291 2.6E-144
2 g10194.t4 PANTHER PTHR11937 ACTIN 8 400 2.6E-215
3 g10194.t4 PANTHER PTHR11937:SF175 ACTIN-RELATED PROTEIN 3 8 400 2.6E-215
1 g10194.t4 Pfam PF00022 Actin 6 400 6.4E-85
7 g10194.t4 ProSitePatterns PS01132 Actins and actin-related proteins signature. 102 114 -
6 g10194.t4 SMART SM00268 actin_3 5 404 1.0E-159
4 g10194.t4 SUPERFAMILY SSF53067 Actin-like ATPase domain 7 146 1.94E-42
5 g10194.t4 SUPERFAMILY SSF53067 Actin-like ATPase domain 153 405 1.23E-79

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

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.

Raw TPM values