Gene loci information

Transcript annotation

  • This transcript has been annotated as Actin, cytoplasmic A3a.

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 g14310 g14310.t14 TTS g14310.t14 36559512 36559512
chr_1 g14310 g14310.t14 isoform g14310.t14 36559514 36560518
chr_1 g14310 g14310.t14 exon g14310.t14.exon1 36559514 36559826
chr_1 g14310 g14310.t14 cds g14310.t14.CDS1 36559621 36559826
chr_1 g14310 g14310.t14 exon g14310.t14.exon2 36559881 36560518
chr_1 g14310 g14310.t14 cds g14310.t14.CDS2 36559881 36560505
chr_1 g14310 g14310.t14 TSS g14310.t14 36561081 36561081

Sequences

>g14310.t14 Gene=g14310 Length=951
AAACTGGGATGATATGGAAAAGATCTGGCATCATACTTTCTACAATGAACTCCGTGTTGC
TCCTGAAGAACATCCAGTCTTGCTTACCGAAGCTCCATTGAATCCAAAAGCAAATCGTGA
AAAGATGACACAAATTATGTTCGAGACATTCAACACACCAGCTATGTATGTCTCAATTCA
AGCTGTCCTCTCATTGTATGCCTCAGGTCGTACAACTGGTATTGTTTTGGATTCTGGTGA
TGGCGTTTCACACACAGTTCCAATTTACGAAGGTTATGCTTTGCCACATGCTATCCTTCG
TCTTGATTTGGCCGGTCGTGATTTAACTGATTTCCTTATGAAAATCTTAACCGAACGTGG
TTATACTTTCACAACCACTGCCGAACGTGAAATTGTCCGTGATATCAAAGAAAAATTGTG
CTATGTTGCACTTGACTTTGAACAAGAAATGGCAACAGCTGCTTCATCAAGCTCATTGGA
GAAATCATATGAATTGCCTGATGGACAAGTCATCACAATCGGAAATGAACGATTCCGTTG
TCCAGAAACTCTCTTCCAACCATCATACATTGGTATGGAATCAAATGGAATTCACGAAAC
AACATACAATTCAATCATGAAGTGTGACGTTGATATCCGTATCGCTGATCGTATGCAAAA
GGAAATTACAGCATTAGCTCCATCAACAATGAAGATCAAAATTATTGCACCACCAGAACG
TAAATACTCAGTCTGGATCGGAGGTTCAATTTTGGCATCGCTCTCAACCTTCCAACAAAT
GTGGATCAGCAAACAAGAATATGATGAATCAGGCCCATCAATTGTCCACAGAAAATGCTT
CTAAATTTTGCCAACTAAAGATTTTTATTTTAAAATTTATTTTTCTAACTAAAGACTGCA
TGTTAAAACACTCTTTCGGTCTTTAATAAAGTACTTTATTAAAATGCTGAT

>g14310.t14 Gene=g14310 Length=276
MEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVSIQAVLS
LYASGRTTGIVLDSGDGVSHTVPIYEGYALPHAILRLDLAGRDLTDFLMKILTERGYTFT
TTAEREIVRDIKEKLCYVALDFEQEMATAASSSSLEKSYELPDGQVITIGNERFRCPETL
FQPSYIGMESNGIHETTYNSIMKCDVDIRIADRMQKEITALAPSTMKIKIIAPPERKYSV
WIGGSILASLSTFQQMWISKQEYDESGPSIVHRKCF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g14310.t14 CDD cd00012 NBD_sugar-kinase_HSP70_actin 1 100 7.24415E-15
12 g14310.t14 Gene3D G3DSA:3.30.420.40 - 1 272 6.8E-132
13 g14310.t14 Gene3D G3DSA:3.30.420.40 - 57 239 6.8E-132
11 g14310.t14 Gene3D G3DSA:3.90.640.10 Actin; Chain A 99 191 6.8E-132
3 g14310.t14 PANTHER PTHR11937 ACTIN 1 275 1.4E-175
4 g14310.t14 PANTHER PTHR11937:SF470 ACTIN-2 1 275 1.4E-175
7 g14310.t14 PRINTS PR00190 Actin signature 3 21 8.9E-42
8 g14310.t14 PRINTS PR00190 Actin signature 34 47 8.9E-42
6 g14310.t14 PRINTS PR00190 Actin signature 59 78 8.9E-42
5 g14310.t14 PRINTS PR00190 Actin signature 155 171 8.9E-42
1 g14310.t14 Pfam PF00022 Actin 1 209 2.9E-74
2 g14310.t14 Pfam PF00022 Actin 210 276 4.1E-28
16 g14310.t14 ProSitePatterns PS01132 Actins and actin-related proteins signature. 23 35 -
15 g14310.t14 ProSitePatterns PS00432 Actins signature 2. 257 265 -
17 g14310.t14 SMART SM00268 actin_3 1 276 1.5E-132
9 g14310.t14 SUPERFAMILY SSF53067 Actin-like ATPase domain 1 72 3.17E-30
10 g14310.t14 SUPERFAMILY SSF53067 Actin-like ATPase domain 66 276 5.4E-86

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