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.t19 isoform g4530.t19 3100515 3101718
chr_2 g4530 g4530.t19 exon g4530.t19.exon1 3100515 3101123
chr_2 g4530 g4530.t19 TTS g4530.t19 3100558 3100558
chr_2 g4530 g4530.t19 cds g4530.t19.CDS1 3101026 3101123
chr_2 g4530 g4530.t19 exon g4530.t19.exon2 3101205 3101376
chr_2 g4530 g4530.t19 cds g4530.t19.CDS2 3101205 3101376
chr_2 g4530 g4530.t19 exon g4530.t19.exon3 3101539 3101718
chr_2 g4530 g4530.t19 cds g4530.t19.CDS3 3101539 3101607
chr_2 g4530 g4530.t19 TSS g4530.t19 NA NA

Sequences

>g4530.t19 Gene=g4530 Length=961
CGTTTATGATTTCTCTCACGGTTCATACCTAATCTCTCTCTGTTGGTGCTTCTTTTACTT
TTCGTAACAACTTGAAGAAATGCTATTTTTAAATTCAACGCATACGTTGTAATGATTATA
CTTGAATGTGTTATATTCACACATTCTATACTTTTAGATATGGCATATAGACAAACGACA
GTAACAAAGGAAGAACTCGCCAAATTAGTACAAGGCTTTGATAAAACTGAAATTTTAACG
TCAGGCGGAGTAACACTCGCCGGACAACGTCACATTTACCTCTCTGGAACAGATCGTGTT
ATTCGTGCGAAGTTGGGTAAAGTTGGTGTTCACTGTATGAAAACACAACAAGCTGTAATT
GTTGCAATTTATGAAGAGCCAGTTCAGCCACAACAGGCTGCTTCCGTCGTTGAGAAACTT
GGAGACTATTTGATCACATGTGGTTATTAGAGGTAAGGCATCATCGCGCAAATTAGAACA
CACACGCATTTGTCCGCCCAGCCAAGTCAGCACCCCCAAAATTCAATAAAAACAAAATAC
TATAAACACAACATCAACAAAACATTTGCAGAAAAGAAGAAAAAACTATCAATAATAATC
GCAATTTTGCATACATTTAAAATGAATTTTTTTTGTTTCATCGTGTGATTGATTGAAGAT
TTGACATTCTTCCAAGCACACATCAAAAAACATCCTTAAATAAAAAATATACATATTCAT
CTTATCCCCACAATTTACATTTATATAAATACATGTATAAAAGAATATTTAAAGCTCATT
TTATCTGAATGGAATTTTTTAAATCATTCTCTTTTCATTTTGAGTTTTTCGTATGAGATT
TTTGAATTTTTTTCTATGTATAACCAAATTCTCGTGAATAAATTGAAATTCGATTCATTT
TTGTGATCGCTTAGAAAGAAAACAACTGACAAAATTTTGAGTAAAAAGTTTTTTTTATAC
A

>g4530.t19 Gene=g4530 Length=112
MIILECVIFTHSILLDMAYRQTTVTKEELAKLVQGFDKTEILTSGGVTLAGQRHIYLSGT
DRVIRAKLGKVGVHCMKTQQAVIVAIYEEPVQPQQAASVVEKLGDYLITCGY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g4530.t19 CDD cd00148 PROF 22 112 0e+00
13 g4530.t19 Gene3D G3DSA:3.30.450.30 Dynein light chain 2a 5 112 0e+00
2 g4530.t19 PANTHER PTHR11604 PROFILIN 19 112 0e+00
3 g4530.t19 PANTHER PTHR11604:SF0 PROFILIN 19 112 0e+00
8 g4530.t19 PRINTS PR00392 Profilin signature 22 42 0e+00
10 g4530.t19 PRINTS PR00392 Profilin signature 46 60 0e+00
5 g4530.t19 PRINTS PR01640 Plant profilin signature 65 80 2e-07
9 g4530.t19 PRINTS PR00392 Profilin signature 81 94 0e+00
4 g4530.t19 PRINTS PR01640 Plant profilin signature 85 98 2e-07
7 g4530.t19 PRINTS PR00392 Profilin signature 94 111 0e+00
6 g4530.t19 PRINTS PR01640 Plant profilin signature 98 111 2e-07
1 g4530.t19 Pfam PF00235 Profilin 18 112 0e+00
12 g4530.t19 SMART SM00392 prof_2 2 112 0e+00
11 g4530.t19 SUPERFAMILY SSF55770 Profilin (actin-binding protein) 4 112 0e+00

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.

Raw TPM values