Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t25 isoform g4530.t25 3100553 3104763
chr_2 g4530 g4530.t25 exon g4530.t25.exon1 3100553 3101123
chr_2 g4530 g4530.t25 TTS g4530.t25 3100558 3100558
chr_2 g4530 g4530.t25 cds g4530.t25.CDS1 3101026 3101123
chr_2 g4530 g4530.t25 exon g4530.t25.exon2 3101241 3101376
chr_2 g4530 g4530.t25 cds g4530.t25.CDS2 3101241 3101376
chr_2 g4530 g4530.t25 exon g4530.t25.exon3 3104653 3104763
chr_2 g4530 g4530.t25 cds g4530.t25.CDS3 3104653 3104763
chr_2 g4530 g4530.t25 TSS g4530.t25 3105043 3105043

Sequences

>g4530.t25 Gene=g4530 Length=818
ATGAGTTGGCAAGATTATGTAGATAACCAATTAATAGCATCACAGTGCGTATCAAAGGCC
TGCATTTCTGGCCACGACGGAGGTATTTGGGCGAAATCAGAAGGTTTTGAGGTAACAAAG
GAAGAACTCGCCAAATTAGTACAAGGCTTTGATAAAACTGAAATTTTAACGTCAGGCGGA
GTAACACTCGCCGGACAACGTCACATTTACCTCTCTGGAACAGATCGTGTTATTCGTGCG
AAGTTGGCTGTAATTGTTGCAATTTATGAAGAGCCAGTTCAGCCACAACAGGCTGCTTCC
GTCGTTGAGAAACTTGGAGACTATTTGATCACATGTGGTTATTAGAGGTAAGGCATCATC
GCGCAAATTAGAACACACACGCATTTGTCCGCCCAGCCAAGTCAGCACCCCCAAAATTCA
ATAAAAACAAAATACTATAAACACAACATCAACAAAACATTTGCAGAAAAGAAGAAAAAA
CTATCAATAATAATCGCAATTTTGCATACATTTAAAATGAATTTTTTTTGTTTCATCGTG
TGATTGATTGAAGATTTGACATTCTTCCAAGCACACATCAAAAAACATCCTTAAATAAAA
AATATACATATTCATCTTATCCCCACAATTTACATTTATATAAATACATGTATAAAAGAA
TATTTAAAGCTCATTTTATCTGAATGGAATTTTTTAAATCATTCTCTTTTCATTTTGAGT
TTTTCGTATGAGATTTTTGAATTTTTTTCTATGTATAACCAAATTCTCGTGAATAAATTG
AAATTCGATTCATTTTTGTGATCGCTTAGAAAGAAAAC

>g4530.t25 Gene=g4530 Length=114
MSWQDYVDNQLIASQCVSKACISGHDGGIWAKSEGFEVTKEELAKLVQGFDKTEILTSGG
VTLAGQRHIYLSGTDRVIRAKLAVIVAIYEEPVQPQQAASVVEKLGDYLITCGY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g4530.t25 CDD cd00148 PROF 2 114 3.16314E-41
11 g4530.t25 Gene3D G3DSA:3.30.450.30 Dynein light chain 2a 1 114 5.3E-31
2 g4530.t25 PANTHER PTHR11604 PROFILIN 1 114 3.8E-29
3 g4530.t25 PANTHER PTHR11604:SF0 PROFILIN 1 114 3.8E-29
6 g4530.t25 PRINTS PR01640 Plant profilin signature 1 7 1.3E-6
9 g4530.t25 PRINTS PR00392 Profilin signature 3 12 2.0E-10
7 g4530.t25 PRINTS PR00392 Profilin signature 83 96 2.0E-10
4 g4530.t25 PRINTS PR01640 Plant profilin signature 87 100 1.3E-6
8 g4530.t25 PRINTS PR00392 Profilin signature 96 113 2.0E-10
5 g4530.t25 PRINTS PR01640 Plant profilin signature 100 113 1.3E-6
1 g4530.t25 Pfam PF00235 Profilin 1 114 3.7E-31
13 g4530.t25 ProSitePatterns PS00414 Profilin signature. 1 8 -
14 g4530.t25 SMART SM00392 prof_2 1 114 7.2E-46
10 g4530.t25 SUPERFAMILY SSF55770 Profilin (actin-binding protein) 2 114 7.98E-33

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

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