General information for g8477.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Lysozyme c-1.
Parent gene
- The parent gene g8477 is located on chr_2: 30886527..30887780 (+ strand)
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 | g8477 | g8477.t1 | TSS | g8477.t1 | 30885878 | 30885878 |
| chr_2 | g8477 | g8477.t1 | isoform | g8477.t1 | 30886527 | 30887207 |
| chr_2 | g8477 | g8477.t1 | exon | g8477.t1.exon1 | 30886527 | 30886656 |
| chr_2 | g8477 | g8477.t1 | cds | g8477.t1.CDS1 | 30886527 | 30886656 |
| chr_2 | g8477 | g8477.t1 | exon | g8477.t1.exon2 | 30886745 | 30886897 |
| chr_2 | g8477 | g8477.t1 | cds | g8477.t1.CDS2 | 30886745 | 30886897 |
| chr_2 | g8477 | g8477.t1 | exon | g8477.t1.exon3 | 30886995 | 30887075 |
| chr_2 | g8477 | g8477.t1 | cds | g8477.t1.CDS3 | 30886995 | 30887075 |
| chr_2 | g8477 | g8477.t1 | exon | g8477.t1.exon4 | 30887140 | 30887207 |
| chr_2 | g8477 | g8477.t1 | cds | g8477.t1.CDS4 | 30887140 | 30887207 |
| chr_2 | g8477 | g8477.t1 | TTS | g8477.t1 | 30887790 | 30887790 |
Sequences
>g8477.t1 Gene=g8477 Length=432
ATGATGATGAGGTACCTGGAGTTGTTATTATTATTGCTAGTTGTTACAACAGATGCCAAA
ATATTCACAAGATGTGAATTAGCAAAGGAACTTTTCAATAGTGGCATTCCAAAGACATTC
ATCTCAAATTGGGTTTGCTTGATCGAGGCAGAATCAGGTGCTGACACATCAAAAGTTACA
GAATTTCCGAATCTAAGTGCCAGTTATGGGATATTTCAGATAAACTCAAAAGAATGGTGC
CGTAAATCGCGAAAAGGAGGCGAGTGTGGGACGCGTTGTGAAGACTTTTTAACTGAAGAT
ATTAAAAATGATATAAGATGCGCTAAAGTCATATACAATCGTCATGGATTTTCATATTGG
AAAGGTTGGACATCACGATGCAAATCTCGTCCATTACCTGATGTGTCAAAATGTTCGTAT
TCCTATTTTTGA
>g8477.t1 Gene=g8477 Length=143
MMMRYLELLLLLLVVTTDAKIFTRCELAKELFNSGIPKTFISNWVCLIEAESGADTSKVT
EFPNLSASYGIFQINSKEWCRKSRKGGECGTRCEDFLTEDIKNDIRCAKVIYNRHGFSYW
KGWTSRCKSRPLPDVSKCSYSYF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g8477.t1 | CDD | cd16899 | LYZ_C_invert | 20 | 138 | 1.00419E-58 |
| 14 | g8477.t1 | Gene3D | G3DSA:1.10.530.10 | - | 16 | 139 | 4.2E-43 |
| 2 | g8477.t1 | PANTHER | PTHR11407 | LYSOZYME C | 6 | 141 | 1.3E-47 |
| 3 | g8477.t1 | PANTHER | PTHR11407:SF63 | LYSOZYME | 6 | 141 | 1.3E-47 |
| 11 | g8477.t1 | PRINTS | PR00137 | Lysozyme signature | 21 | 39 | 7.4E-5 |
| 7 | g8477.t1 | PRINTS | PR00135 | Lysozyme/alpha-lactalbumin superfamily signature | 22 | 32 | 7.6E-16 |
| 4 | g8477.t1 | PRINTS | PR00135 | Lysozyme/alpha-lactalbumin superfamily signature | 39 | 48 | 7.6E-16 |
| 6 | g8477.t1 | PRINTS | PR00135 | Lysozyme/alpha-lactalbumin superfamily signature | 66 | 82 | 7.6E-16 |
| 10 | g8477.t1 | PRINTS | PR00137 | Lysozyme signature | 94 | 109 | 7.4E-5 |
| 8 | g8477.t1 | PRINTS | PR00135 | Lysozyme/alpha-lactalbumin superfamily signature | 97 | 112 | 7.6E-16 |
| 9 | g8477.t1 | PRINTS | PR00137 | Lysozyme signature | 115 | 124 | 7.4E-5 |
| 5 | g8477.t1 | PRINTS | PR00135 | Lysozyme/alpha-lactalbumin superfamily signature | 116 | 127 | 7.6E-16 |
| 1 | g8477.t1 | Pfam | PF00062 | C-type lysozyme/alpha-lactalbumin family | 20 | 138 | 1.4E-29 |
| 16 | g8477.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 17 | g8477.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 7 | - |
| 18 | g8477.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 8 | 15 | - |
| 19 | g8477.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 19 | - |
| 15 | g8477.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 143 | - |
| 22 | g8477.t1 | ProSitePatterns | PS00128 | Glycosyl hydrolases family 22 (GH22) domain signature. | 89 | 107 | - |
| 23 | g8477.t1 | ProSiteProfiles | PS51348 | Glycosyl hydrolases family 22 (GH22) domain profile. | 20 | 141 | 31.197 |
| 21 | g8477.t1 | SMART | SM00263 | lysozyme-fin | 20 | 139 | 6.0E-40 |
| 12 | g8477.t1 | SUPERFAMILY | SSF53955 | Lysozyme-like | 19 | 138 | 1.74E-40 |
| 13 | g8477.t1 | 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
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0003796 | lysozyme activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01185 (lysozyme)
Pathway
This gene does not belong to any 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