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.t33 isoform g4530.t33 3100896 3105043
chr_2 g4530 g4530.t33 exon g4530.t33.exon1 3100896 3100965
chr_2 g4530 g4530.t33 TTS g4530.t33 3100907 3100907
chr_2 g4530 g4530.t33 exon g4530.t33.exon2 3101024 3101123
chr_2 g4530 g4530.t33 cds g4530.t33.CDS1 3101026 3101123
chr_2 g4530 g4530.t33 exon g4530.t33.exon3 3101205 3101376
chr_2 g4530 g4530.t33 cds g4530.t33.CDS2 3101205 3101376
chr_2 g4530 g4530.t33 exon g4530.t33.exon4 3104653 3105043
chr_2 g4530 g4530.t33 cds g4530.t33.CDS3 3104653 3104763
chr_2 g4530 g4530.t33 TSS g4530.t33 3105043 3105043

Sequences

>g4530.t33 Gene=g4530 Length=733
AGTTTTGTGCGAGCAAGCAATCGAATAACTTCCTAAGACTTTTTCCACAAAAAAAGAGTT
GTGCCATTTTTTCCAATTTTCCCTTTTAACGGGCTAAACGCGAAGTGAACACACAATAAG
TGTAAAGCACATAGAACGGCGATAGAAAGGATTTAAAAGAATATCATCAATACATTTGGA
TTAAAAATATATTTGGAAAAAGACTTTGGAGTACAGCAAAAAAAGCAAAAGGAATCTTTC
AAATTTATATTAAACAAGAAATCTAAAAGAAAAAATCAAAATGAGTTGGCAAGATTATGT
AGATAACCAATTAATAGCATCACAGTGCGTATCAAAGGCCTGCATTTCTGGCCACGACGG
AGGTATTTGGGCGAAATCAGAAGGTTTTGAGGTAACAAAGGAAGAACTCGCCAAATTAGT
ACAAGGCTTTGATAAAACTGAAATTTTAACGTCAGGCGGAGTAACACTCGCCGGACAACG
TCACATTTACCTCTCTGGAACAGATCGTGTTATTCGTGCGAAGTTGGGTAAAGTTGGTGT
TCACTGTATGAAAACACAACAAGCTGTAATTGTTGCAATTTATGAAGAGCCAGTTCAGCC
ACAACAGGCTGCTTCCGTCGTTGAGAAACTTGGAGACTATTTGATCACATGTGGTTATTA
GAGCACCCCCAAAATTCAATAAAAACAAAATACTATAAACACAACATCAACAAAACATTT
GCAGAAAAGAAGA

>g4530.t33 Gene=g4530 Length=126
MSWQDYVDNQLIASQCVSKACISGHDGGIWAKSEGFEVTKEELAKLVQGFDKTEILTSGG
VTLAGQRHIYLSGTDRVIRAKLGKVGVHCMKTQQAVIVAIYEEPVQPQQAASVVEKLGDY
LITCGY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g4530.t33 CDD cd00148 PROF 2 126 9.35017E-50
16 g4530.t33 Gene3D G3DSA:3.30.450.30 Dynein light chain 2a 1 126 2.9E-41
2 g4530.t33 PANTHER PTHR11604 PROFILIN 1 126 7.5E-39
3 g4530.t33 PANTHER PTHR11604:SF0 PROFILIN 1 126 7.5E-39
8 g4530.t33 PRINTS PR01640 Plant profilin signature 1 12 1.2E-17
14 g4530.t33 PRINTS PR00392 Profilin signature 3 12 5.4E-22
11 g4530.t33 PRINTS PR00392 Profilin signature 18 27 5.4E-22
6 g4530.t33 PRINTS PR01640 Plant profilin signature 24 37 1.2E-17
9 g4530.t33 PRINTS PR00392 Profilin signature 36 56 5.4E-22
13 g4530.t33 PRINTS PR00392 Profilin signature 60 74 5.4E-22
7 g4530.t33 PRINTS PR01640 Plant profilin signature 79 94 1.2E-17
10 g4530.t33 PRINTS PR00392 Profilin signature 95 108 5.4E-22
5 g4530.t33 PRINTS PR01640 Plant profilin signature 99 112 1.2E-17
12 g4530.t33 PRINTS PR00392 Profilin signature 108 125 5.4E-22
4 g4530.t33 PRINTS PR01640 Plant profilin signature 112 125 1.2E-17
1 g4530.t33 Pfam PF00235 Profilin 1 126 1.5E-42
18 g4530.t33 ProSitePatterns PS00414 Profilin signature. 1 8 -
19 g4530.t33 SMART SM00392 prof_2 1 126 8.0E-58
15 g4530.t33 SUPERFAMILY SSF55770 Profilin (actin-binding protein) 2 126 1.57E-40

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.

Raw TPM values