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.t5 TTS g7579.t5 24637378 24637378
chr_2 g7579 g7579.t5 isoform g7579.t5 24637801 24639782
chr_2 g7579 g7579.t5 exon g7579.t5.exon1 24637801 24638897
chr_2 g7579 g7579.t5 cds g7579.t5.CDS1 24637801 24638897
chr_2 g7579 g7579.t5 exon g7579.t5.exon2 24639743 24639782
chr_2 g7579 g7579.t5 cds g7579.t5.CDS2 24639743 24639782
chr_2 g7579 g7579.t5 TSS g7579.t5 24639846 24639846

Sequences

>g7579.t5 Gene=g7579 Length=1137
ATGTGTGACGATGATGTTGCTGCTTTAGTCGTTGACAATGAAACAGGCTCAGGTATGTGC
AAAGCTGGCTTTGCCGGTGATGATGCACCACGTGCCGTCTTCCCATCAATTGTTGGTCGC
CCACGTCATCAAGGTGTTATGGTCGGTATGGGTCAAAAGGACTCATATGTCGGTGATGAG
GCTCAAAGCAAAAGAGGTATCCTCACATTGAAATATCCAATTGAACACGGTATCATCACA
AACTGGGACGATATGGAAAAGATCTGGCATCACACATTCTACAATGAACTTCGTGTTGCA
CCAGAAGAACACCCAGTCTTGCTCACAGAAGCTCCATTGAACCCAAAGGCTAACCGTGAG
AAGATGACACAAATCATGTTCGAAACCTTCAACTCACCAGCTATGTATGTCGCCATCCAA
GCCGTTCTCTCATTGTACGCTTCAGGTCGTACCACTGGTATTGTTTTGGATTCAGGAGAT
GGTGTTTCACACACAGTCCCAATTTATGAAGGTTATGCCTTGCCACATGCCATCCTCCGT
CTTGACTTGGCTGGTCGTGACTTGACTGATTACTTGATGAAGATCTTGACCGAACGTGGT
TACTCATTCACAACCACTGCTGAACGTGAAATTGTTCGTGATATTAAGGAAAAATTGTGC
TATGTTGCTTTGGACTTTGAACAAGAAATGGCCACAGCTGCTGCATCAACATCACTCGAG
AAGTCATATGAATTGCCTGATGGTCAAGTTATCACCATCGGTAATGAACGTTTCCGTTGC
CCAGAAGCATTGTTCCAACCATCATTCTTGGGTATGGAATCATGCGGTATTCACGAGACC
GTCTACAATTCAATCATGAAATGCGACGTTGATATCCGTAAGGACTTGTATGCCAACACA
GTCATGTCAGGTGGCACAACAATGTACCCAGGTATTGCCGATCGTATGCAAAAGGAAATC
ACTGCCTTGGCTCCATCAACCATCAAGATCAAGATTATTGCTCCACCAGAACGTAAATAC
TCTGTATGGATCGGAGGTTCAATCTTGGCATCACTCTCAACCTTCCAACAAATGTGGATC
TCAAAGGAAGAATACGACGAATCAGGCCCAGGCATTGTCCACAGAAAGTGCTTCTAA

>g7579.t5 Gene=g7579 Length=378
MCDDDVAALVVDNETGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDE
AQSKRGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANRE
KMTQIMFETFNSPAMYVAIQAVLSLYASGRTTGIVLDSGDGVSHTVPIYEGYALPHAILR
LDLAGRDLTDYLMKILTERGYSFTTTAEREIVRDIKEKLCYVALDFEQEMATAAASTSLE
KSYELPDGQVITIGNERFRCPEALFQPSFLGMESCGIHETVYNSIMKCDVDIRKDLYANT
VMSGGTTMYPGIADRMQKEITALAPSTIKIKIIAPPERKYSVWIGGSILASLSTFQQMWI
SKEEYDESGPGIVHRKCF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g7579.t5 CDD cd00012 NBD_sugar-kinase_HSP70_actin 9 184 6.18825E-18
13 g7579.t5 Gene3D G3DSA:3.30.420.40 - 10 374 1.5E-188
14 g7579.t5 Gene3D G3DSA:3.30.420.40 - 141 341 1.5E-188
12 g7579.t5 Gene3D G3DSA:3.90.640.10 Actin; Chain A 183 275 1.5E-188
2 g7579.t5 PANTHER PTHR11937:SF162 ACTIN, INDIRECT FLIGHT MUSCLE-LIKE PROTEIN 1 377 3.2E-259
3 g7579.t5 PANTHER PTHR11937 ACTIN 1 377 3.2E-259
8 g7579.t5 PRINTS PR00190 Actin signature 29 38 6.7E-58
4 g7579.t5 PRINTS PR00190 Actin signature 52 63 6.7E-58
7 g7579.t5 PRINTS PR00190 Actin signature 64 86 6.7E-58
9 g7579.t5 PRINTS PR00190 Actin signature 118 131 6.7E-58
6 g7579.t5 PRINTS PR00190 Actin signature 143 162 6.7E-58
5 g7579.t5 PRINTS PR00190 Actin signature 239 255 6.7E-58
1 g7579.t5 Pfam PF00022 Actin 4 378 1.2E-146
18 g7579.t5 ProSitePatterns PS00406 Actins signature 1. 56 66 -
17 g7579.t5 ProSitePatterns PS01132 Actins and actin-related proteins signature. 107 119 -
16 g7579.t5 ProSitePatterns PS00432 Actins signature 2. 359 367 -
19 g7579.t5 SMART SM00268 actin_3 6 378 4.2E-236
10 g7579.t5 SUPERFAMILY SSF53067 Actin-like ATPase domain 4 156 4.75E-63
11 g7579.t5 SUPERFAMILY SSF53067 Actin-like ATPase domain 150 378 3.37E-99

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

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. There were no conditions that were differentially expressed