Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Lysozyme.

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 g1247 g1247.t4 TSS g1247.t4 9118955 9118955
chr_3 g1247 g1247.t4 isoform g1247.t4 9119015 9119486
chr_3 g1247 g1247.t4 exon g1247.t4.exon1 9119015 9119300
chr_3 g1247 g1247.t4 cds g1247.t4.CDS1 9119015 9119300
chr_3 g1247 g1247.t4 exon g1247.t4.exon2 9119402 9119486
chr_3 g1247 g1247.t4 cds g1247.t4.CDS2 9119402 9119412
chr_3 g1247 g1247.t4 TTS g1247.t4 NA NA

Sequences

>g1247.t4 Gene=g1247 Length=371
ATGAAATTTTTAATTGCTGCAATTTTATTTGTTGCAATTTTTGCTAATATTAACGCAAAA
ATTTATTCAAAATGTGAGCTCGTTCGAACACTTTATAATTCTGGTATTCCACAAAGTCAG
TTACGTGATTGGGCATGCTTAGTACAACATGAAAGTAGCTACAACTCAAAAGCAAAAGGA
GGACCAAACAAAAATGGCTCATATGACTATGGAATTTTTCAAATCAATTCAAAATATTGG
TGTGGAATTGGAAAAGTTGGTGGAGATTGTAATTTAAATTGCAATTATAATCTATAAACG
TCATAATTTCAGTGCTTGGTATGGTTGGGTTAATCATTGCAAAGGAAAAGCTCTGCCATC
AATTTCAGAAT

>g1247.t4 Gene=g1247 Length=98
MKFLIAAILFVAIFANINAKIYSKCELVRTLYNSGIPQSQLRDWACLVQHESSYNSKAKG
GPNKNGSYDYGIFQINSKYWCGIGKVGGDCNLNCNYNL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g1247.t4 Gene3D G3DSA:1.10.530.10 - 16 98 1.2E-28
2 g1247.t4 PANTHER PTHR11407 LYSOZYME C 1 95 3.8E-29
3 g1247.t4 PANTHER PTHR11407:SF36 GEO02684P1-RELATED 1 95 3.8E-29
6 g1247.t4 PRINTS PR00135 Lysozyme/alpha-lactalbumin superfamily signature 22 32 8.8E-10
5 g1247.t4 PRINTS PR00135 Lysozyme/alpha-lactalbumin superfamily signature 39 48 8.8E-10
7 g1247.t4 PRINTS PR00135 Lysozyme/alpha-lactalbumin superfamily signature 67 83 8.8E-10
4 g1247.t4 PRINTS PR00135 Lysozyme/alpha-lactalbumin superfamily signature 88 97 8.8E-10
1 g1247.t4 Pfam PF00062 C-type lysozyme/alpha-lactalbumin family 20 95 2.7E-18
12 g1247.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
13 g1247.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
14 g1247.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
15 g1247.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
11 g1247.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 98 -
17 g1247.t4 ProSiteProfiles PS51348 Glycosyl hydrolases family 22 (GH22) domain profile. 20 98 24.906
16 g1247.t4 SMART SM00263 lysozyme-fin 20 95 1.1E-10
8 g1247.t4 SUPERFAMILY SSF53955 Lysozyme-like 20 95 9.12E-28
9 g1247.t4 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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