General information for g10465.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Peptidoglycan-recognition protein LF.
Parent gene
- The parent gene g10465 is located on chr_1: 9978080..9979320 (+ 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_1 | g10465 | g10465.t1 | TSS | g10465.t1 | 9978017 | 9978017 |
| chr_1 | g10465 | g10465.t1 | isoform | g10465.t1 | 9978080 | 9979320 |
| chr_1 | g10465 | g10465.t1 | exon | g10465.t1.exon1 | 9978080 | 9978595 |
| chr_1 | g10465 | g10465.t1 | cds | g10465.t1.CDS1 | 9978080 | 9978595 |
| chr_1 | g10465 | g10465.t1 | exon | g10465.t1.exon2 | 9978798 | 9978906 |
| chr_1 | g10465 | g10465.t1 | cds | g10465.t1.CDS2 | 9978798 | 9978906 |
| chr_1 | g10465 | g10465.t1 | exon | g10465.t1.exon3 | 9978965 | 9979000 |
| chr_1 | g10465 | g10465.t1 | cds | g10465.t1.CDS3 | 9978965 | 9979000 |
| chr_1 | g10465 | g10465.t1 | exon | g10465.t1.exon4 | 9979064 | 9979320 |
| chr_1 | g10465 | g10465.t1 | cds | g10465.t1.CDS4 | 9979064 | 9979320 |
| chr_1 | g10465 | g10465.t1 | TTS | g10465.t1 | 9979390 | 9979390 |
Sequences
>g10465.t1 Gene=g10465 Length=918
ATGTTTCAAAAAAATCACAATTGTACACCACAAAATAATGATTTTAATCAATCGATAGTT
GAAACGCAAAATATTAATCAAAGTAGTACAAAAATGAATGATGTGAGCTTAAATAATTCT
TCACATATTCAGATGGGAACAAGAGTCATCTATAATGGTCCGGTGATGATATCAAATTCA
ATACAAAATAGTGAGACAAACAAAATATATAAATGTGGTTGTTGTGATATTTCTCAGAAA
ACACTTAAGAGAATTCTCAATTTATTTGCTATGGTTTTTGTTGTACTTCTTTCTACATTT
GTAGTTCTTGCTTTTTTCCTAAGAAATACTCATGATAATAAAAGTGAAATTCTGAAACCT
GAAATTAAATTAAAAACACCGTCAAATTCAGAAATTTATAGATTTTATACTAGAGAAGAT
TGGAATGCAAGTAAAGCTGAGCCTTATTTTAAATTAATTCATCCTATTAAGAGAGTTATT
ATTTCTCATACAGTCATGAGAGAATGTTATGTTGAGAAAGAATGCATATGGATTGTGCAA
GAAATACAAAGACTTCATAAAAATTGGGATTTTGGTGATATTGGATTTAATTTTGTCATC
ATGAATGATGGAAGCATTTTTGAAGGAAGAGGTTGGGACATTATGGGTGCTCATACACGA
GGCTTTAATAATAACAGTATAGGTATCGTATACAATGGCAATTTTCAAACTCAAAGTCCA
CCACAAAAGCAAATTCTTGCGGGATTTTCTTTACTTGAAGAAGGAGTTCGTTTAGGAAAA
TTATCACCAGATTTTAAAATCTATGGAATGCGACAATTTCAAAGTAATGAAAGTCCTGGT
GAAGCTTTCTTTCAAATGATTAAAACATGGAAAAATTGGTCTGAAGATATTGATGAATGT
TGTCCAAAACCAACATAA
>g10465.t1 Gene=g10465 Length=305
MFQKNHNCTPQNNDFNQSIVETQNINQSSTKMNDVSLNNSSHIQMGTRVIYNGPVMISNS
IQNSETNKIYKCGCCDISQKTLKRILNLFAMVFVVLLSTFVVLAFFLRNTHDNKSEILKP
EIKLKTPSNSEIYRFYTREDWNASKAEPYFKLIHPIKRVIISHTVMRECYVEKECIWIVQ
EIQRLHKNWDFGDIGFNFVIMNDGSIFEGRGWDIMGAHTRGFNNNSIGIVYNGNFQTQSP
PQKQILAGFSLLEEGVRLGKLSPDFKIYGMRQFQSNESPGEAFFQMIKTWKNWSEDIDEC
CPKPT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g10465.t1 | CDD | cd06583 | PGRP | 155 | 282 | 1.12179E-31 |
| 4 | g10465.t1 | Gene3D | G3DSA:3.40.80.10 | Lysozyme | 124 | 300 | 3.4E-49 |
| 2 | g10465.t1 | PANTHER | PTHR11022 | PEPTIDOGLYCAN RECOGNITION PROTEIN | 125 | 293 | 8.2E-52 |
| 1 | g10465.t1 | Pfam | PF01510 | N-acetylmuramoyl-L-alanine amidase | 155 | 280 | 8.2E-12 |
| 5 | g10465.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 84 | - |
| 7 | g10465.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 85 | 107 | - |
| 6 | g10465.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 108 | 305 | - |
| 10 | g10465.t1 | SMART | SM00701 | pgrp | 133 | 274 | 1.2E-42 |
| 11 | g10465.t1 | SMART | SM00644 | ami_2 | 141 | 280 | 0.0081 |
| 3 | g10465.t1 | SUPERFAMILY | SSF55846 | N-acetylmuramoyl-L-alanine amidase-like | 133 | 295 | 1.27E-50 |
| 9 | g10465.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 85 | 107 | - |
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:0008745 | N-acetylmuramoyl-L-alanine amidase activity | MF |
| GO:0008270 | zinc ion binding | MF |
| GO:0009253 | peptidoglycan catabolic process | 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