Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cofilin/actin-depolymerizing factor-like protein.

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_4 g16136 g16136.t9 isoform g16136.t9 8338172 8342707
chr_4 g16136 g16136.t9 exon g16136.t9.exon1 8338172 8338398
chr_4 g16136 g16136.t9 TTS g16136.t9 8338183 8338183
chr_4 g16136 g16136.t9 cds g16136.t9.CDS1 8338283 8338398
chr_4 g16136 g16136.t9 exon g16136.t9.exon2 8338460 8338589
chr_4 g16136 g16136.t9 cds g16136.t9.CDS2 8338460 8338589
chr_4 g16136 g16136.t9 exon g16136.t9.exon3 8338651 8338925
chr_4 g16136 g16136.t9 cds g16136.t9.CDS3 8338651 8338731
chr_4 g16136 g16136.t9 exon g16136.t9.exon4 8342693 8342707
chr_4 g16136 g16136.t9 TSS g16136.t9 8342954 8342954

Sequences

>g16136.t9 Gene=g16136 Length=647
ATGGTATGTGAAAAAATGTTTGTAAGACAACATATGAAGAAATTAAGAAGGACAAAAAAC
ATCGCTATGTAATTTTTTACATTCGTGATGAGAAGCAAATTGATGTGGAAGTGATTGGTG
AACGTAATGCAGAATATGATTCGTTCCTTGAAGATATTCAAAAAGGCGGTCCAGGTGAAT
GCCGATATGGACTCTTTGATTTTGAGTATATGCATCAATGTCAAGGCACCTCTGAGAGTT
CCAAGAAGCAAAAATTATTTTTAATGTCCTGGTGTCCAGATACTGCTAAAGTCAAGAAGA
AGATGTTGTACTCAAGCTCATTTGATGCATTGAAAAAGTCACTTGTAGGTGTGCAAAAAT
ACATTCAAGCTACAGACTTATCAGAGGCCTCACGTGAAGCTGTTGAAGAAAAATTGCGCT
TTTTTGAATTATTATTATTATTATTTTGCAACAATTACATCAAATTTATCTATTCATTTA
TAAAATGTGTCAACAAATTAATTTTCTCTCCCCATTTTATTTGTCTCATTTTTTAAATAA
AAAAAATAATTAAAGTAATTAATTATTGATTAAAATAAACTCAAAAACTGAAAAAGAACA
TTTAAATAAAAATGATTTTTTAAGTTTTATTAGCTGAAATAAAATTT

>g16136.t9 Gene=g16136 Length=108
MHQCQGTSESSKKQKLFLMSWCPDTAKVKKKMLYSSSFDALKKSLVGVQKYIQATDLSEA
SREAVEEKLRFFELLLLLFCNNYIKFIYSFIKCVNKLIFSPHFICLIF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g16136.t9 Gene3D G3DSA:3.40.20.10 Severin 1 71 7.0E-24
2 g16136.t9 PANTHER PTHR11913:SF12 COFILIN/ACTIN-DEPOLYMERIZING FACTOR HOMOLOG-RELATED 7 69 7.1E-17
3 g16136.t9 PANTHER PTHR11913 COFILIN-RELATED 7 69 7.1E-17
5 g16136.t9 PRINTS PR00006 Cofilin/destrin family signature 17 38 2.8E-5
4 g16136.t9 PRINTS PR00006 Cofilin/destrin family signature 39 55 2.8E-5
1 g16136.t9 Pfam PF00241 Cofilin/tropomyosin-type actin-binding protein 8 68 2.1E-18
9 g16136.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 70 -
11 g16136.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 71 91 -
10 g16136.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 92 108 -
8 g16136.t9 ProSiteProfiles PS51263 ADF-H domain profile. 1 70 23.192
6 g16136.t9 SUPERFAMILY SSF55753 Actin depolymerizing proteins 7 69 1.1E-20

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
GO:0015629 actin cytoskeleton CC
GO:0030042 actin filament depolymerization BP

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