Gene loci information

Transcript annotation

  • This transcript has been annotated as Profilin.

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 g4530 g4530.t18 TTS g4530.t18 3099488 3099488
chr_2 g4530 g4530.t18 isoform g4530.t18 3100403 3104763
chr_2 g4530 g4530.t18 exon g4530.t18.exon1 3100403 3101123
chr_2 g4530 g4530.t18 cds g4530.t18.CDS1 3101026 3101123
chr_2 g4530 g4530.t18 exon g4530.t18.exon2 3101205 3101348
chr_2 g4530 g4530.t18 cds g4530.t18.CDS2 3101205 3101348
chr_2 g4530 g4530.t18 exon g4530.t18.exon3 3104649 3104763
chr_2 g4530 g4530.t18 cds g4530.t18.CDS3 3104649 3104763
chr_2 g4530 g4530.t18 TSS g4530.t18 3105043 3105043

Sequences

>g4530.t18 Gene=g4530 Length=980
ATGAGTTGGCAAGATTATGTAGATAACCAATTAATAGCATCACAGTGCGTATCAAAGGCC
TGCATTTCTGGCCACGACGGAGGTATTTGGGCGAAATCAGAAGGTTTTGAGGTGATACAA
GGCTTTGATAAAACTGAAATTTTAACGTCAGGCGGAGTAACACTCGCCGGACAACGTCAC
ATTTACCTCTCTGGAACAGATCGTGTTATTCGTGCGAAGTTGGGTAAAGTTGGTGTTCAC
TGTATGAAAACACAACAAGCTGTAATTGTTGCAATTTATGAAGAGCCAGTTCAGCCACAA
CAGGCTGCTTCCGTCGTTGAGAAACTTGGAGACTATTTGATCACATGTGGTTATTAGAGG
TAAGGCATCATCGCGCAAATTAGAACACACACGCATTTGTCCGCCCAGCCAAGTCAGCAC
CCCCAAAATTCAATAAAAACAAAATACTATAAACACAACATCAACAAAACATTTGCAGAA
AAGAAGAAAAAACTATCAATAATAATCGCAATTTTGCATACATTTAAAATGAATTTTTTT
TGTTTCATCGTGTGATTGATTGAAGATTTGACATTCTTCCAAGCACACATCAAAAAACAT
CCTTAAATAAAAAATATACATATTCATCTTATCCCCACAATTTACATTTATATAAATACA
TGTATAAAAGAATATTTAAAGCTCATTTTATCTGAATGGAATTTTTTAAATCATTCTCTT
TTCATTTTGAGTTTTTCGTATGAGATTTTTGAATTTTTTTCTATGTATAACCAAATTCTC
GTGAATAAATTGAAATTCGATTCATTTTTGTGATCGCTTAGAAAGAAAACAACTGACAAA
ATTTTGAGTAAAAAGTTTTTTTTATACAAGACTTGCTTTTAGTTTTATGAATCCCTTTTA
TATCTTCTCTTTATTTTATGTGAGCTAGATAAATAATATACATATATTCCTTTGACAAAT
TACCTAAGATTTCTTTTCAT

>g4530.t18 Gene=g4530 Length=118
MSWQDYVDNQLIASQCVSKACISGHDGGIWAKSEGFEVIQGFDKTEILTSGGVTLAGQRH
IYLSGTDRVIRAKLGKVGVHCMKTQQAVIVAIYEEPVQPQQAASVVEKLGDYLITCGY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g4530.t18 CDD cd00148 PROF 2 118 1.71573E-43
13 g4530.t18 Gene3D G3DSA:3.30.450.30 Dynein light chain 2a 1 118 1.0E-34
2 g4530.t18 PANTHER PTHR11604 PROFILIN 1 118 2.8E-31
3 g4530.t18 PANTHER PTHR11604:SF0 PROFILIN 1 118 2.8E-31
5 g4530.t18 PRINTS PR01640 Plant profilin signature 1 9 2.5E-11
11 g4530.t18 PRINTS PR00392 Profilin signature 3 12 3.3E-15
10 g4530.t18 PRINTS PR00392 Profilin signature 18 27 3.3E-15
6 g4530.t18 PRINTS PR01640 Plant profilin signature 71 86 2.5E-11
8 g4530.t18 PRINTS PR00392 Profilin signature 87 100 3.3E-15
7 g4530.t18 PRINTS PR01640 Plant profilin signature 91 104 2.5E-11
9 g4530.t18 PRINTS PR00392 Profilin signature 100 117 3.3E-15
4 g4530.t18 PRINTS PR01640 Plant profilin signature 104 117 2.5E-11
1 g4530.t18 Pfam PF00235 Profilin 1 118 1.8E-34
15 g4530.t18 ProSitePatterns PS00414 Profilin signature. 1 8 -
16 g4530.t18 SMART SM00392 prof_2 1 118 2.2E-50
12 g4530.t18 SUPERFAMILY SSF55770 Profilin (actin-binding protein) 2 118 2.49E-35

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0003779 actin binding MF

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