Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Lysozyme c-1.

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 g6192 g6192.t1 TSS g6192.t1 15179180 15179180
chr_2 g6192 g6192.t1 isoform g6192.t1 15179213 15179696
chr_2 g6192 g6192.t1 exon g6192.t1.exon1 15179213 15179492
chr_2 g6192 g6192.t1 cds g6192.t1.CDS1 15179213 15179492
chr_2 g6192 g6192.t1 exon g6192.t1.exon2 15179554 15179696
chr_2 g6192 g6192.t1 cds g6192.t1.CDS2 15179554 15179696
chr_2 g6192 g6192.t1 TTS g6192.t1 15179726 15179726

Sequences

>g6192.t1 Gene=g6192 Length=423
ATGAAGTTTTTATTTTTAATCAGTTTTATCTTGATTTTCTTGCAAGTAAATGCAAAAATT
TACACAAAATGTGAATTAGCTAAAAAATTGGATGGAACTTTTGCAAGAAATAAATTACCT
GATTGGATGTGTTTGGTAAAGCATGAAAGCTCTTATAATTCACGAACAAAAGGACCTAAG
AACAAAAACGGTTCATATGATTGGGGAATTTTTCAAATAAATGACAAATATTGGTGCAGA
GATGGAAGCGCTGGCGGAGATTGCAATATTGACTGTAATCGTTTCATTAATGATGATATA
ACTGACGATATCACTTGTGCAAAGAAGATTTTTAATCGCCACGGATTTGAGGCCTGGTAT
GGTTGGAAGAATAATTGTAAAGGAAAGTCATTAGATAACTATTCTATTAATGAGTGTTTT
TAA

>g6192.t1 Gene=g6192 Length=140
MKFLFLISFILIFLQVNAKIYTKCELAKKLDGTFARNKLPDWMCLVKHESSYNSRTKGPK
NKNGSYDWGIFQINDKYWCRDGSAGGDCNIDCNRFINDDITDDITCAKKIFNRHGFEAWY
GWKNNCKGKSLDNYSINECF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g6192.t1 CDD cd16899 LYZ_C_invert 19 135 3.79473E-58
15 g6192.t1 Gene3D G3DSA:1.10.530.10 - 19 84 2.8E-25
14 g6192.t1 Gene3D G3DSA:1.10.530.10 - 86 140 6.3E-19
2 g6192.t1 PANTHER PTHR11407 LYSOZYME C 2 140 3.0E-49
9 g6192.t1 PRINTS PR00137 Lysozyme signature 20 38 1.2E-7
4 g6192.t1 PRINTS PR00135 Lysozyme/alpha-lactalbumin superfamily signature 21 31 1.1E-19
6 g6192.t1 PRINTS PR00135 Lysozyme/alpha-lactalbumin superfamily signature 65 81 1.1E-19
3 g6192.t1 PRINTS PR00135 Lysozyme/alpha-lactalbumin superfamily signature 86 95 1.1E-19
8 g6192.t1 PRINTS PR00137 Lysozyme signature 93 108 1.2E-7
5 g6192.t1 PRINTS PR00135 Lysozyme/alpha-lactalbumin superfamily signature 96 111 1.1E-19
10 g6192.t1 PRINTS PR00137 Lysozyme signature 114 123 1.2E-7
7 g6192.t1 PRINTS PR00135 Lysozyme/alpha-lactalbumin superfamily signature 115 126 1.1E-19
11 g6192.t1 PRINTS PR00137 Lysozyme signature 124 137 1.2E-7
1 g6192.t1 Pfam PF00062 C-type lysozyme/alpha-lactalbumin family 19 134 1.3E-35
17 g6192.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 18 -
18 g6192.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
19 g6192.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
20 g6192.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 18 -
16 g6192.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 19 140 -
23 g6192.t1 ProSitePatterns PS00128 Glycosyl hydrolases family 22 (GH22) domain signature. 88 106 -
24 g6192.t1 ProSiteProfiles PS51348 Glycosyl hydrolases family 22 (GH22) domain profile. 19 140 38.247
22 g6192.t1 SMART SM00263 lysozyme-fin 19 140 2.1E-53
12 g6192.t1 SUPERFAMILY SSF53955 Lysozyme-like 18 134 1.9E-43
13 g6192.t1 SignalP_EUK SignalP-noTM SignalP-noTM 1 18 -

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:0003796 lysozyme activity 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. There were no conditions that were differentially expressed