Gene loci information

Transcript annotation

  • This transcript has been annotated as Actin-related protein 1.

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 g9607 g9607.t8 TTS g9607.t8 4261965 4261965
chr_1 g9607 g9607.t8 isoform g9607.t8 4262910 4263909
chr_1 g9607 g9607.t8 exon g9607.t8.exon1 4262910 4263347
chr_1 g9607 g9607.t8 cds g9607.t8.CDS1 4262910 4263347
chr_1 g9607 g9607.t8 exon g9607.t8.exon2 4263409 4263583
chr_1 g9607 g9607.t8 cds g9607.t8.CDS2 4263409 4263555
chr_1 g9607 g9607.t8 exon g9607.t8.exon3 4263666 4263909
chr_1 g9607 g9607.t8 TSS g9607.t8 4263984 4263984

Sequences

>g9607.t8 Gene=g9607 Length=857
ATGGAACCGTATGATGTAATTGTTAATCAACCAGTAGTTATTGATAATGTAAGTGTTTGT
TCTATTAAAGAAATATTGTAGATAACAGAAAAAGATTTTCTTTTACCGCATGAATCATCA
TCATCATCGCACCGCCTATAAAAATTGTAACATTTTGATATCAATTATTCGTTTTTCAGG
GATCAGGAATAATTAAGGCTGGCTTTGCTGGTGATCAAATTCCTAAATGCATTTTTCCCA
ATTATGTGGGACGACCAAAACATGTACGAGTGATGGCTGGTGCTTTAGAAGGAGATCTTT
TTGTTGGTCAAAGAGCTGATGATCATCGTGGACTTCTTAGCATAAAATATCCTATGGAAC
ATGGTATAATAGAAGATTGGAATGATATGGAAAGAATCTGGACGCACATATATGGCAAAG
ACCAGCTTTCTACTTTCTCAGAAGAACATCCGGTTCTTCTAACAGAAGCACCATTAAATC
CTCGAAAAAATCGTGAAAAGTCAGCAGAAATATTTTTTGAGACTTTCAACGTTCCTGCTC
TCTTTGTATCAATGCAGGCTGTTTTAAGTTTGTATGCGACAGGAAGAGTGACTGGTGTGG
TTTTGGATGCTGGTGATGGCGTTACTCATGCAGTTCCAATTTATGAAGGTTTTGCAATGC
CTCACAGTATCATGCGAACTGACCTTGCTGGACGTGATGTAACTCGCTACCTAAAAGCAC
TCATACGAAAAGAAGGTTTCAATTTTCGCACTACTGCCGAATTCGAAATTGTTAAGATGA
TAAAAGAAAAAGTTTGTTATTTGGCCACAAATCTTCAAAAAGAAGAAAATATGGACACAG
ATAAAATTGGCTATGTA

>g9607.t8 Gene=g9607 Length=195
MAGALEGDLFVGQRADDHRGLLSIKYPMEHGIIEDWNDMERIWTHIYGKDQLSTFSEEHP
VLLTEAPLNPRKNREKSAEIFFETFNVPALFVSMQAVLSLYATGRVTGVVLDAGDGVTHA
VPIYEGFAMPHSIMRTDLAGRDVTRYLKALIRKEGFNFRTTAEFEIVKMIKEKVCYLATN
LQKEENMDTDKIGYV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g9607.t8 CDD cd00012 NBD_sugar-kinase_HSP70_actin 31 158 8.5301E-14
11 g9607.t8 Gene3D G3DSA:3.30.420.40 - 1 135 7.6E-44
10 g9607.t8 Gene3D G3DSA:3.90.640.10 Actin; Chain A 138 195 1.2E-15
2 g9607.t8 PANTHER PTHR11937 ACTIN 1 194 1.1E-97
3 g9607.t8 PANTHER PTHR11937:SF370 ALPHA-CENTRACTIN 1 194 1.1E-97
6 g9607.t8 PRINTS PR00190 Actin signature 6 17 1.5E-26
5 g9607.t8 PRINTS PR00190 Actin signature 18 40 1.5E-26
4 g9607.t8 PRINTS PR00190 Actin signature 73 86 1.5E-26
7 g9607.t8 PRINTS PR00190 Actin signature 98 117 1.5E-26
1 g9607.t8 Pfam PF00022 Actin 8 189 1.9E-56
13 g9607.t8 ProSitePatterns PS01132 Actins and actin-related proteins signature. 62 74 -
14 g9607.t8 SMART SM00268 actin_3 1 195 7.9E-20
8 g9607.t8 SUPERFAMILY SSF53067 Actin-like ATPase domain 7 111 1.79E-35
9 g9607.t8 SUPERFAMILY SSF53067 Actin-like ATPase domain 104 187 3.2E-25

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 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