Gene loci information

Transcript annotation

  • This transcript has been annotated as Actin, muscle-type A2.

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_3 g2177 g2177.t2 TSS g2177.t2 15794546 15794546
chr_3 g2177 g2177.t2 isoform g2177.t2 15794547 15796778
chr_3 g2177 g2177.t2 exon g2177.t2.exon1 15794547 15794670
chr_3 g2177 g2177.t2 exon g2177.t2.exon2 15795563 15795984
chr_3 g2177 g2177.t2 cds g2177.t2.CDS1 15795587 15795984
chr_3 g2177 g2177.t2 exon g2177.t2.exon3 15796046 15796778
chr_3 g2177 g2177.t2 cds g2177.t2.CDS2 15796046 15796778
chr_3 g2177 g2177.t2 TTS g2177.t2 NA NA

Sequences

>g2177.t2 Gene=g2177 Length=1279
GTTCACTTTGTTACAAGCTTAGTAGTAAGTAACCAGCTAAGTACCAGCATCAAATCATTG
AAAAAAGTGAAAAGCCTGTGACACTTCTTAAATTTAATTTATTTTAGTTTTTTTCGTTGA
AAGGGGATAAACTTATAAAACAGCCACAATGTGTGATGATGATGCCGGAGCTCTTGTCAT
TGACAATGGATCAGGAATGTGCAAAGCTGGTTTTGCTGGTGATGATGCACCACGTGCTGT
CTTTCCATCAATTGTCGGTCGTCCACGCCATCAAGGTGTAATGGTCGGTATGGGTCAAAA
AGATGCCTATGTTGGTGATGAAGCACAAAGCAAGAGAGGTATTCTTACCTTGAAATATCC
AATTGAACACGGGATCATCACTAACTGGGATGATATGGAAAAGATCTGGCATCACACATT
CTACAATGAACTCCGTGTTGCACCCGAAGAACATCCAGTCTTGCTCACAGAAGCTCCATT
GAATCCAAAGACCAACCGTGAGAAGATGACACAAATCATGTTTGAGACATTTGCTGCCCC
AGCTGTCTATGTTGCCATTCAGGCTGTGCTCTCACTCTATGCCTCAGGTCGTACCACTGG
TATTGTCTTGGATTCAGGAGATGGTGTTTCACACACTGTTCCAATCTATGAAGGTTATGC
TTTGCCACATGCCATCACACGTTTGGACTTAGCTGGTCGCGATTTGACTGACTACTTGAT
GAAGATTTTGACCGAACGTGGTTATTCATTCACAACCACTGCTGAACGTGAAATTGTCCG
TGATATTAAGGAAAAGTTGTGCTATGTTGCATTGGATTTCGAACAAGAAATGCAAACTGC
CTCAGCTTCAACCTCATTGGAAAAATCATATGAATTGCCTGATGGTCAAGTTATTACCAT
TGGTAATGAACGTTTCCGTTGCCCAGAAGCTCTCTTCCAACCATCATTCTTGGGCATGGA
ATCATGCGGTGTTCACGAAACTGTCTATAACTCAATCATGAAATGCGATGTTGATATCCG
TAAAGACTTGTACGCTAACTCAGTTCTCTCAGGTGGTACAACAATGTACCCAGGTATTGC
TGATCGTATGCAAAAGGAAATTACCTCACTCGCTCCATCAACAATCAAAATCAAGATCAT
TGCTCCACCAGAACGTAAATACTCAGTATGGATCGGAGGTTCAATTTTGGCATCACTCTC
AACCTTCCAGACCATGTGGATCAGCAAGCAAGAATATGATGAATCAGGCCCAGGCATTGT
TCACAGAAAATGTTTCTAA

>g2177.t2 Gene=g2177 Length=376
MCDDDAGALVIDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDAYVGDEAQ
SKRGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKTNREKM
TQIMFETFAAPAVYVAIQAVLSLYASGRTTGIVLDSGDGVSHTVPIYEGYALPHAITRLD
LAGRDLTDYLMKILTERGYSFTTTAEREIVRDIKEKLCYVALDFEQEMQTASASTSLEKS
YELPDGQVITIGNERFRCPEALFQPSFLGMESCGVHETVYNSIMKCDVDIRKDLYANSVL
SGGTTMYPGIADRMQKEITSLAPSTIKIKIIAPPERKYSVWIGGSILASLSTFQTMWISK
QEYDESGPGIVHRKCF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g2177.t2 CDD cd00012 NBD_sugar-kinase_HSP70_actin 9 182 3.1627E-20
14 g2177.t2 Gene3D G3DSA:3.30.420.40 - 9 372 1.0E-190
13 g2177.t2 Gene3D G3DSA:3.30.420.40 - 139 339 1.0E-190
12 g2177.t2 Gene3D G3DSA:3.90.640.10 Actin; Chain A 181 273 1.0E-190
2 g2177.t2 PANTHER PTHR11937:SF397 ACTIN, INDIRECT FLIGHT MUSCLE-RELATED 1 375 1.1E-256
3 g2177.t2 PANTHER PTHR11937 ACTIN 1 375 1.1E-256
6 g2177.t2 PRINTS PR00190 Actin signature 27 36 1.1E-56
8 g2177.t2 PRINTS PR00190 Actin signature 50 61 1.1E-56
9 g2177.t2 PRINTS PR00190 Actin signature 62 84 1.1E-56
5 g2177.t2 PRINTS PR00190 Actin signature 116 129 1.1E-56
4 g2177.t2 PRINTS PR00190 Actin signature 141 160 1.1E-56
7 g2177.t2 PRINTS PR00190 Actin signature 237 253 1.1E-56
1 g2177.t2 Pfam PF00022 Actin 4 376 1.4E-148
18 g2177.t2 ProSitePatterns PS00406 Actins signature 1. 54 64 -
17 g2177.t2 ProSitePatterns PS01132 Actins and actin-related proteins signature. 105 117 -
16 g2177.t2 ProSitePatterns PS00432 Actins signature 2. 357 365 -
19 g2177.t2 SMART SM00268 actin_3 6 376 1.5E-238
11 g2177.t2 SUPERFAMILY SSF53067 Actin-like ATPase domain 4 154 1.59E-66
10 g2177.t2 SUPERFAMILY SSF53067 Actin-like ATPase domain 147 376 1.64E-98

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.

Raw TPM values