General information for g7024.t3
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.t3 | TTS | g7024.t3 | 20687304 | 20687304 |
| chr_2 | g7024 | g7024.t3 | isoform | g7024.t3 | 20687942 | 20689239 |
| chr_2 | g7024 | g7024.t3 | exon | g7024.t3.exon1 | 20687942 | 20688062 |
| chr_2 | g7024 | g7024.t3 | cds | g7024.t3.CDS1 | 20687944 | 20688062 |
| chr_2 | g7024 | g7024.t3 | exon | g7024.t3.exon2 | 20688112 | 20688960 |
| chr_2 | g7024 | g7024.t3 | cds | g7024.t3.CDS2 | 20688112 | 20688960 |
| chr_2 | g7024 | g7024.t3 | exon | g7024.t3.exon3 | 20689017 | 20689239 |
| chr_2 | g7024 | g7024.t3 | cds | g7024.t3.CDS3 | 20689017 | 20689239 |
| chr_2 | g7024 | g7024.t3 | TSS | g7024.t3 | 20689284 | 20689284 |
Sequences
>g7024.t3 Gene=g7024 Length=1193
ATGTATAAAAATAATAACAACTTGAATCTCAATCGATGTGCATCAATATCAACGATTGAC
AGCATTTCTGCTGCTGAAATTGTGAATCAAGCATATCAAAAATTTGAATTAGATGCATCG
CCAATACCACTATCATCACATAATAACCTTATGTTTGAAAAAAGCGAAAAAATTCATGTA
GGCGATGTTATCAATTATTATTTAAGTTCGTCATCAATAGAAGGTTCAAAACAAAGAATA
AATAACAATTCACAGAAGAATTTCGAAAACAAAATTGATGTGATATCAAACGACAGTGAT
TCAAGCAGGCAAAATATATTTCAAAAAAAGATTTTTTTATTAATAACATTGATAAGCTTT
GTTATCATTACTTTAATACTTATCAGTATTTTATACATTATGAACTATAATGAAAATTTA
AATAATACTGATATCGAAGAAACAACGTCAATTAGTATTACCTCTACGAGTACATATACA
CTTCTCTCTACTATTACTACTACTTCTACTAATATTGAGACAACAACCACAATTACTGAA
ATAAGTCCCACTGTGCCTCCGGTTATCACACTTGAATCCTACAAAACTAGAAAAGATTGG
AATGCAGAAGCAGCAAAAGCCACAATTGCACTAAAGCTTCCAATTCATAGAATAATTATT
GCTCACACAGGTGGTGAAAGTTGCCATAATGAAAATGATTGCAAGCGAATTATCAAAAGG
CTACAAGAAAATTCAATTGATCTCGATGATATTCCATACAATTTTCTCATTGGTGACGAT
TCAAATATCTATGAAGGTCGCGGAATTTTATTTCAAGGTCAACATTCGATGAATAAATTT
GCAACTGAATATGATAGTATTGGGATTTGCGTAGCTTTTATTGGCAATTATGAGTTTACA
GCACTAAGTGAATCTCAAATTAAAGCATTTGGATATTTTGTGAAATACTTTATAGATAAT
GGTTTAATTATTGAAAATTATACACTTTTTTCACATGATCAATTGGTAAAGAATGAAAAA
CCAGCTGATAAATTAACTGAAATGATTAAAGATTGGAAAGGTTTCAGAAATTTGCAAAAA
ATTTTTCATCGCGATGAATGGAAAGCTGAAGAACCAAAAACTGTAAAAAGATTCAATCAC
ATAATCGATTGGGCACTTTTAAGTGGAAATTATACACCACAATGTTATAATTT
>g7024.t3 Gene=g7024 Length=397
MYKNNNNLNLNRCASISTIDSISAAEIVNQAYQKFELDASPIPLSSHNNLMFEKSEKIHV
GDVINYYLSSSSIEGSKQRINNNSQKNFENKIDVISNDSDSSRQNIFQKKIFLLITLISF
VIITLILISILYIMNYNENLNNTDIEETTSISITSTSTYTLLSTITTTSTNIETTTTITE
ISPTVPPVITLESYKTRKDWNAEAAKATIALKLPIHRIIIAHTGGESCHNENDCKRIIKR
LQENSIDLDDIPYNFLIGDDSNIYEGRGILFQGQHSMNKFATEYDSIGICVAFIGNYEFT
ALSESQIKAFGYFVKYFIDNGLIIENYTLFSHDQLVKNEKPADKLTEMIKDWKGFRNLQK
IFHRDEWKAEEPKTVKRFNHIIDWALLSGNYTPQCYN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g7024.t3 | CDD | cd06583 | PGRP | 214 | 335 | 1.43042E-23 |
| 7 | g7024.t3 | Gene3D | G3DSA:3.40.80.10 | Lysozyme | 190 | 360 | 1.3E-32 |
| 3 | g7024.t3 | PANTHER | PTHR11022 | PEPTIDOGLYCAN RECOGNITION PROTEIN | 184 | 277 | 3.8E-37 |
| 5 | g7024.t3 | PANTHER | PTHR11022:SF40 | PEPTIDOGLYCAN RECOGNITION PROTEIN 4 | 184 | 277 | 3.8E-37 |
| 2 | g7024.t3 | PANTHER | PTHR11022 | PEPTIDOGLYCAN RECOGNITION PROTEIN | 196 | 356 | 3.8E-37 |
| 4 | g7024.t3 | PANTHER | PTHR11022:SF40 | PEPTIDOGLYCAN RECOGNITION PROTEIN 4 | 196 | 356 | 3.8E-37 |
| 1 | g7024.t3 | Pfam | PF01510 | N-acetylmuramoyl-L-alanine amidase | 214 | 334 | 7.0E-8 |
| 8 | g7024.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 110 | - |
| 10 | g7024.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 111 | 134 | - |
| 9 | g7024.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 135 | 397 | - |
| 13 | g7024.t3 | SMART | SM00701 | pgrp | 192 | 336 | 2.1E-26 |
| 6 | g7024.t3 | SUPERFAMILY | SSF55846 | N-acetylmuramoyl-L-alanine amidase-like | 195 | 357 | 1.98E-34 |
| 12 | g7024.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 111 | 133 | - |
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