Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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_3 g1279 g1279.t9 TTS g1279.t9 9417096 9417096
chr_3 g1279 g1279.t9 isoform g1279.t9 9417989 9421548
chr_3 g1279 g1279.t9 exon g1279.t9.exon1 9417989 9418208
chr_3 g1279 g1279.t9 cds g1279.t9.CDS1 9417989 9418208
chr_3 g1279 g1279.t9 exon g1279.t9.exon2 9418263 9418595
chr_3 g1279 g1279.t9 cds g1279.t9.CDS2 9418263 9418595
chr_3 g1279 g1279.t9 exon g1279.t9.exon3 9418662 9418702
chr_3 g1279 g1279.t9 cds g1279.t9.CDS3 9418662 9418690
chr_3 g1279 g1279.t9 exon g1279.t9.exon4 9421190 9421548
chr_3 g1279 g1279.t9 TSS g1279.t9 NA NA

Sequences

>g1279.t9 Gene=g1279 Length=953
TTTCCATCGTGGAAGAATTTTTTTTGGAAAATTTGTTTACAATTTGAATTTTTGAAAAAT
AACCGTCATATTCTCAAGAAATTTCTTTTATTTTGCAAACATGTCTTGATTGATCAATCA
ATAGCATGATTCATGTTAATTTTGATAATAAATTTACACTTAAAAGAGAATTACTCTCCT
AATGTTATTTATTTCTCTCATACAATTTTTGTATAAAAACTCTCAAGTTTACTCAAAAAT
CAACTGTACATCACTCATCACTGTTCAGTCGGTTGTAAACTTCTGTAGTGTAAAAGTGAA
AATTAATAAAAACGCCGGTATCAAGCTACTTTACTTGTTTTAGATTTCCAAAGTCAAAGA
AAGCGACAAATATGTGGAAATTGCTGTTGACTATTTTAAGTTTACATAAATTTATAAATT
GTCAAGAATTTAATATATCACATTTACATAAAACTAGACCGAAGGACTATAGTTTTAGTT
TCATTCCTGATAATGGAGAGGGTGAAACTGAAATTTTCAGATTTATAAATTCAAACATGT
TTTCTGTTGAATTAAAAGATTATGGCGTTTTTGATGGTGGTGATTCTTATGTCGTAAAAT
ATAAATACAAAGATAAAAATTATAAAGACAGCTATATTATTTATAGTTGGAAAGGAATCA
ATTCCAACAGATTTGAAAAAGTTGGAGCAATTTTCTTTTCCGTGAAAATGAAAAATGATT
TGACAAAACGAAAATTCATTATGGCTGGATTACCAACTAAGCTAAGCAATGACACAGAAG
ACATTTTTGTGAAGCAAATTCAAATAGATCAAAGTTGTGAAACTCCACATTTTTTAAAAA
TTTTTAAAGGCAAAACTTTATTTACTGGTATTTTTAATCAAGATTCTTATGATATTGATG
GAATAAGGCTATTTAGAATTCGTGGAACTAATGAGGGAAATGTTCGCACTACT

>g1279.t9 Gene=g1279 Length=194
MWKLLLTILSLHKFINCQEFNISHLHKTRPKDYSFSFIPDNGEGETEIFRFINSNMFSVE
LKDYGVFDGGDSYVVKYKYKDKNYKDSYIIYSWKGINSNRFEKVGAIFFSVKMKNDLTKR
KFIMAGLPTKLSNDTEDIFVKQIQIDQSCETPHFLKIFKGKTLFTGIFNQDSYDIDGIRL
FRIRGTNEGNVRTT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g1279.t9 Gene3D G3DSA:3.40.20.10 Severin 35 174 2.9E-18
1 g1279.t9 PANTHER PTHR11977 VILLIN 16 192 9.7E-21
7 g1279.t9 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
8 g1279.t9 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
9 g1279.t9 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 12 -
10 g1279.t9 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 17 -
6 g1279.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 194 -
3 g1279.t9 SMART SM00262 VILL_6 44 161 3.8E-5
2 g1279.t9 SUPERFAMILY SSF55753 Actin depolymerizing proteins 37 187 1.36E-20
4 g1279.t9 SignalP_EUK SignalP-noTM SignalP-noTM 1 17 -

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:0051015 actin filament 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