Gene loci information

Transcript annotation

  • This transcript has been annotated as Actin, muscle.

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_2 g7579 g7579.t4 TTS g7579.t4 24637378 24637378
chr_2 g7579 g7579.t4 isoform g7579.t4 24637801 24639782
chr_2 g7579 g7579.t4 exon g7579.t4.exon1 24637801 24637928
chr_2 g7579 g7579.t4 cds g7579.t4.CDS1 24637801 24637928
chr_2 g7579 g7579.t4 exon g7579.t4.exon2 24638061 24638891
chr_2 g7579 g7579.t4 cds g7579.t4.CDS2 24638061 24638891
chr_2 g7579 g7579.t4 exon g7579.t4.exon3 24639743 24639782
chr_2 g7579 g7579.t4 cds g7579.t4.CDS3 24639743 24639782
chr_2 g7579 g7579.t4 TSS g7579.t4 24639846 24639846

Sequences

>g7579.t4 Gene=g7579 Length=999
ATGTGTGACGATGATGTTGCTGCTTTAGTCGTTGACAATGGCTCAGGTATGTGCAAAGCT
GGCTTTGCCGGTGATGATGCACCACGTGCCGTCTTCCCATCAATTGTTGGTCGCCCACGT
CATCAAGGTGTTATGGTCGGTATGGGTCAAAAGGACTCATATGTCGGTGATGAGGCTCAA
AGCAAAAGAGGTATCCTCACATTGAAATATCCAATTGAACACGGTATCATCACAAACTGG
GACGATATGGAAAAGATCTGGCATCACACATTCTACAATGAACTTCGTGTTGCACCAGAA
GAACACCCAGTCTTGCTCACAGAAGCTCCATTGAACCCAAAGGCTAACCGTGAGAAGATG
ACACAAATCATGTTCGAAACCTTCAACTCACCAGCTATGTATGTCGCCATCCAAGCCGTT
CTCTCATTGTACGCTTCAGGTCGTACCACTGGTATTGTTTTGGATTCAGGAGATGGTGTT
TCACACACAGTCCCAATTTATGAAGGTTATGCCTTGCCACATGCCATCCTCCGTCTTGAC
TTGGCTGGTCGTGACTTGACTGATTACTTGATGAAGATCTTGACCGAACGTGGTTACTCA
TTCACAACCACTGCTGAACGTGAAATTGTTCGTGATATTAAGGAAAAATTGTGCTATGTT
GCTTTGGACTTTGAACAAGAAATGGCCACAGCTGCTGCATCAACATCACTCGAGAAGTCA
TATGAATTGCCTGATGGTCAAGTTATCACCATCGGTAATGAACGTTTCCGTTGCCCAGAA
GCATTGTTCCAACCATCATTCTTGGGTATGGAATCATGCGGTATTCACGAGACCGTCTAC
AATTCAATCATGAAATGCGACGTTGATATCCAACGTAAATACTCTGTATGGATCGGAGGT
TCAATCTTGGCATCACTCTCAACCTTCCAACAAATGTGGATCTCAAAGGAAGAATACGAC
GAATCAGGCCCAGGCATTGTCCACAGAAAGTGCTTCTAA

>g7579.t4 Gene=g7579 Length=332
MCDDDVAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQ
SKRGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKM
TQIMFETFNSPAMYVAIQAVLSLYASGRTTGIVLDSGDGVSHTVPIYEGYALPHAILRLD
LAGRDLTDYLMKILTERGYSFTTTAEREIVRDIKEKLCYVALDFEQEMATAAASTSLEKS
YELPDGQVITIGNERFRCPEALFQPSFLGMESCGIHETVYNSIMKCDVDIQRKYSVWIGG
SILASLSTFQQMWISKEEYDESGPGIVHRKCF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g7579.t4 CDD cd00012 NBD_sugar-kinase_HSP70_actin 9 182 3.4616E-20
17 g7579.t4 Gene3D G3DSA:3.30.420.40 - 9 138 2.4E-146
16 g7579.t4 Gene3D G3DSA:3.30.420.40 - 139 290 2.4E-146
14 g7579.t4 Gene3D G3DSA:3.90.640.10 Actin; Chain A 181 273 2.4E-146
15 g7579.t4 Gene3D G3DSA:3.30.420.40 - 291 332 6.6E-15
3 g7579.t4 PANTHER PTHR11937:SF162 ACTIN, INDIRECT FLIGHT MUSCLE-LIKE PROTEIN 1 292 5.0E-222
5 g7579.t4 PANTHER PTHR11937 ACTIN 1 292 5.0E-222
2 g7579.t4 PANTHER PTHR11937:SF162 ACTIN, INDIRECT FLIGHT MUSCLE-LIKE PROTEIN 291 331 5.0E-222
4 g7579.t4 PANTHER PTHR11937 ACTIN 291 331 5.0E-222
8 g7579.t4 PRINTS PR00190 Actin signature 27 36 3.4E-58
10 g7579.t4 PRINTS PR00190 Actin signature 50 61 3.4E-58
11 g7579.t4 PRINTS PR00190 Actin signature 62 84 3.4E-58
7 g7579.t4 PRINTS PR00190 Actin signature 116 129 3.4E-58
6 g7579.t4 PRINTS PR00190 Actin signature 141 160 3.4E-58
9 g7579.t4 PRINTS PR00190 Actin signature 237 253 3.4E-58
1 g7579.t4 Pfam PF00022 Actin 4 292 3.5E-106
21 g7579.t4 ProSitePatterns PS00406 Actins signature 1. 54 64 -
20 g7579.t4 ProSitePatterns PS01132 Actins and actin-related proteins signature. 105 117 -
19 g7579.t4 ProSitePatterns PS00432 Actins signature 2. 313 321 -
22 g7579.t4 SMART SM00268 actin_3 6 332 6.5E-190
12 g7579.t4 SUPERFAMILY SSF53067 Actin-like ATPase domain 4 154 8.7E-67
13 g7579.t4 SUPERFAMILY SSF53067 Actin-like ATPase domain 148 332 3.46E-76

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