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.t26 isoform g4530.t26 3100553 3104763
chr_2 g4530 g4530.t26 exon g4530.t26.exon1 3100553 3101123
chr_2 g4530 g4530.t26 TTS g4530.t26 3100558 3100558
chr_2 g4530 g4530.t26 cds g4530.t26.CDS1 3101026 3101123
chr_2 g4530 g4530.t26 exon g4530.t26.exon2 3101262 3101376
chr_2 g4530 g4530.t26 cds g4530.t26.CDS2 3101262 3101376
chr_2 g4530 g4530.t26 exon g4530.t26.exon3 3104653 3104763
chr_2 g4530 g4530.t26 cds g4530.t26.CDS3 3104653 3104763
chr_2 g4530 g4530.t26 TSS g4530.t26 3105043 3105043

Sequences

>g4530.t26 Gene=g4530 Length=797
ATGAGTTGGCAAGATTATGTAGATAACCAATTAATAGCATCACAGTGCGTATCAAAGGCC
TGCATTTCTGGCCACGACGGAGGTATTTGGGCGAAATCAGAAGGTTTTGAGGTAACAAAG
GAAGAACTCGCCAAATTAGTACAAGGCTTTGATAAAACTGAAATTTTAACGTCAGGCGGA
GTAACACTCGCCGGACAACGTCACATTTACCTCTCTGGAACAGATCCTGTAATTGTTGCA
ATTTATGAAGAGCCAGTTCAGCCACAACAGGCTGCTTCCGTCGTTGAGAAACTTGGAGAC
TATTTGATCACATGTGGTTATTAGAGGTAAGGCATCATCGCGCAAATTAGAACACACACG
CATTTGTCCGCCCAGCCAAGTCAGCACCCCCAAAATTCAATAAAAACAAAATACTATAAA
CACAACATCAACAAAACATTTGCAGAAAAGAAGAAAAAACTATCAATAATAATCGCAATT
TTGCATACATTTAAAATGAATTTTTTTTGTTTCATCGTGTGATTGATTGAAGATTTGACA
TTCTTCCAAGCACACATCAAAAAACATCCTTAAATAAAAAATATACATATTCATCTTATC
CCCACAATTTACATTTATATAAATACATGTATAAAAGAATATTTAAAGCTCATTTTATCT
GAATGGAATTTTTTAAATCATTCTCTTTTCATTTTGAGTTTTTCGTATGAGATTTTTGAA
TTTTTTTCTATGTATAACCAAATTCTCGTGAATAAATTGAAATTCGATTCATTTTTGTGA
TCGCTTAGAAAGAAAAC

>g4530.t26 Gene=g4530 Length=107
MSWQDYVDNQLIASQCVSKACISGHDGGIWAKSEGFEVTKEELAKLVQGFDKTEILTSGG
VTLAGQRHIYLSGTDPVIVAIYEEPVQPQQAASVVEKLGDYLITCGY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g4530.t26 CDD cd00148 PROF 2 107 4.46144E-36
13 g4530.t26 Gene3D G3DSA:3.30.450.30 Dynein light chain 2a 1 75 1.2E-20
12 g4530.t26 Gene3D G3DSA:3.30.450.30 Dynein light chain 2a 76 107 5.3E-7
4 g4530.t26 PANTHER PTHR11604 PROFILIN 1 75 3.3E-27
6 g4530.t26 PANTHER PTHR11604:SF0 PROFILIN 1 75 3.3E-27
3 g4530.t26 PANTHER PTHR11604 PROFILIN 77 107 3.3E-27
5 g4530.t26 PANTHER PTHR11604:SF0 PROFILIN 77 107 3.3E-27
10 g4530.t26 PRINTS PR00392 Profilin signature 3 12 1.9E-9
8 g4530.t26 PRINTS PR00392 Profilin signature 18 27 1.9E-9
7 g4530.t26 PRINTS PR00392 Profilin signature 36 56 1.9E-9
9 g4530.t26 PRINTS PR00392 Profilin signature 60 74 1.9E-9
1 g4530.t26 Pfam PF00235 Profilin 1 74 8.4E-21
2 g4530.t26 Pfam PF00235 Profilin 77 107 1.8E-7
15 g4530.t26 ProSitePatterns PS00414 Profilin signature. 1 8 -
16 g4530.t26 SMART SM00392 prof_2 1 107 8.1E-36
11 g4530.t26 SUPERFAMILY SSF55770 Profilin (actin-binding protein) 2 107 4.58E-30

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