General information for g7024.t2
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 g7024 is located on chr_2: 20687942..20689239 (- 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 | g7024 | g7024.t2 | TTS | g7024.t2 | 20687304 | 20687304 |
| chr_2 | g7024 | g7024.t2 | isoform | g7024.t2 | 20687424 | 20689239 |
| chr_2 | g7024 | g7024.t2 | exon | g7024.t2.exon1 | 20687424 | 20687877 |
| chr_2 | g7024 | g7024.t2 | cds | g7024.t2.CDS1 | 20687761 | 20687877 |
| chr_2 | g7024 | g7024.t2 | exon | g7024.t2.exon2 | 20687941 | 20688062 |
| chr_2 | g7024 | g7024.t2 | cds | g7024.t2.CDS2 | 20687941 | 20688062 |
| chr_2 | g7024 | g7024.t2 | exon | g7024.t2.exon3 | 20688112 | 20689239 |
| chr_2 | g7024 | g7024.t2 | cds | g7024.t2.CDS3 | 20688112 | 20688784 |
| chr_2 | g7024 | g7024.t2 | TSS | g7024.t2 | 20689284 | 20689284 |
Sequences
>g7024.t2 Gene=g7024 Length=1704
ATGTATAAAAATAATAACAACTTGAATCTCAATCGATGTGCATCAATATCAACGATTGAC
AGCATTTCTGCTGCTGAAATTGTGAATCAAGCATATCAAAAATTTGAATTAGATGCATCG
CCAATACCACTATCATCACATAATAACCTTATGTTTGAAAAAAGCGAAAAAATTCATGTA
GGCGATGTTATCAATTATTATTTAAGTTCGTCATCAATAGAAGGTATTAATCAAATATAT
AATTAACAGAAAAAAATTAAAAAAGTAATAAGTTTTTAGGTTCAAAACAAAGAATAAATA
ACAATTCACAGAAGAATTTCGAAAACAAAATTGATGTGATATCAAACGACAGTGATTCAA
GCAGGCAAAATATATTTCAAAAAAAGATTTTTTTATTAATAACATTGATAAGCTTTGTTA
TCATTACTTTAATACTTATCAGTATTTTATACATTATGAACTATAATGAAAATTTAAATA
ATACTGATATCGAAGAAACAACGTCAATTAGTATTACCTCTACGAGTACATATACACTTC
TCTCTACTATTACTACTACTTCTACTAATATTGAGACAACAACCACAATTACTGAAATAA
GTCCCACTGTGCCTCCGGTTATCACACTTGAATCCTACAAAACTAGAAAAGATTGGAATG
CAGAAGCAGCAAAAGCCACAATTGCACTAAAGCTTCCAATTCATAGAATAATTATTGCTC
ACACAGGTGGTGAAAGTTGCCATAATGAAAATGATTGCAAGCGAATTATCAAAAGGCTAC
AAGAAAATTCAATTGATCTCGATGATATTCCATACAATTTTCTCATTGGTGACGATTCAA
ATATCTATGAAGGTCGCGGAATTTTATTTCAAGGTCAACATTCGATGAATAAATTTGCAA
CTGAATATGATAGTATTGGGATTTGCGTAGCTTTTATTGGCAATTATGAGTTTACAGCAC
TAAGTGAATCTCAAATTAAAGCATTTGGATATTTTGTGAAATACTTTATAGATAATGGTT
TAATTATTGAAAATTATACACTTTTTTCACATGATCAATTGGTAAAGAATGAAAAACCAG
CTGATAAATTAACTGAAATGATTAAAGATTGGAAAGGTTTCAGAAATTTGCAAAAAATTT
TTCATCGCGATGAATGGAAAGCTGAAGAACCAAAAACTGTAAAAAGATTCAATCACATAA
TCGATTGGGCACTTTTAAGTGGAAATTATACACCACAATGTTATAATTTTAGTCATTGTG
CAGAAGATGTTAGGAAAATCCAAAAGAATGCATTTAATGGTAATCTCAATGATATTGGAT
ATGCATTTATAATAGGTGGTGATGGTATGTTTATGATAAATAGTTGAATTTAATTTAAAT
TTATTGTTTTCGTAAGGATTAATTTTCGAAGGAAGAGGCTGGGATCTTTTGGGTGAACAT
ACTGATGGCTATGATAACAAAACAATTGCAATTCATATAATAGATGATAACATTGTTCAT
CCACCTAACGATTTCGTCATGAATGCAATTTACAATCTTCTTGAAGATGGTGCAGCACTT
GGTAAATTAACAAAAAATTATTTTATAAATGGAAGACAAGAATTAGCTTTAAAATTTAAA
GGACCTGGTTATGGATTAGTTGGTGCAATCAAAAAATGGACTCATTGGCAATATTTACCA
AAACCTAAGCGATTCATAAATTAA
>g7024.t2 Gene=g7024 Length=303
MNYNENLNNTDIEETTSISITSTSTYTLLSTITTTSTNIETTTTITEISPTVPPVITLES
YKTRKDWNAEAAKATIALKLPIHRIIIAHTGGESCHNENDCKRIIKRLQENSIDLDDIPY
NFLIGDDSNIYEGRGILFQGQHSMNKFATEYDSIGICVAFIGNYEFTALSESQIKAFGYF
VKYFIDNGLIIENYTLFSHDQLVKNEKPADKLTEMIKDWKGFRNLQKIFHRDEWKAEEPK
TVKRFNHIIDWALLSGNYTPQCYNFSHCAEDVRKIQKNAFNGNLNDIGYAFIIGGDGMFM
INS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g7024.t2 | CDD | cd06583 | PGRP | 81 | 202 | 0 |
| 10 | g7024.t2 | Gene3D | G3DSA:3.40.80.10 | Lysozyme | 57 | 224 | 0 |
| 9 | g7024.t2 | Gene3D | G3DSA:3.40.80.10 | Lysozyme | 225 | 299 | 0 |
| 3 | g7024.t2 | PANTHER | PTHR11022 | PEPTIDOGLYCAN RECOGNITION PROTEIN | 48 | 223 | 0 |
| 5 | g7024.t2 | PANTHER | PTHR11022:SF67 | PEPTIDOGLYCAN-RECOGNITION PROTEIN LB-RELATED | 48 | 223 | 0 |
| 2 | g7024.t2 | PANTHER | PTHR11022 | PEPTIDOGLYCAN RECOGNITION PROTEIN | 226 | 298 | 0 |
| 4 | g7024.t2 | PANTHER | PTHR11022:SF67 | PEPTIDOGLYCAN-RECOGNITION PROTEIN LB-RELATED | 226 | 298 | 0 |
| 1 | g7024.t2 | Pfam | PF01510 | N-acetylmuramoyl-L-alanine amidase | 81 | 201 | 0 |
| 8 | g7024.t2 | SMART | SM00701 | pgrp | 59 | 203 | 0 |
| 7 | g7024.t2 | SUPERFAMILY | SSF55846 | N-acetylmuramoyl-L-alanine amidase-like | 62 | 224 | 0 |
| 6 | g7024.t2 | SUPERFAMILY | SSF55846 | N-acetylmuramoyl-L-alanine amidase-like | 227 | 298 | 0 |
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