General information for g6532.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Peptidoglycan recognition protein 3.
Parent gene
- The parent gene g6532 is located on chr_2: 17500935..17502441 (- 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 | g6532 | g6532.t1 | TTS | g6532.t1 | 17500857 | 17500857 |
| chr_2 | g6532 | g6532.t1 | isoform | g6532.t1 | 17500935 | 17502441 |
| chr_2 | g6532 | g6532.t1 | exon | g6532.t1.exon1 | 17500935 | 17501311 |
| chr_2 | g6532 | g6532.t1 | cds | g6532.t1.CDS1 | 17500935 | 17501311 |
| chr_2 | g6532 | g6532.t1 | exon | g6532.t1.exon2 | 17501371 | 17501458 |
| chr_2 | g6532 | g6532.t1 | cds | g6532.t1.CDS2 | 17501371 | 17501458 |
| chr_2 | g6532 | g6532.t1 | exon | g6532.t1.exon3 | 17501517 | 17501638 |
| chr_2 | g6532 | g6532.t1 | cds | g6532.t1.CDS3 | 17501517 | 17501638 |
| chr_2 | g6532 | g6532.t1 | exon | g6532.t1.exon4 | 17501698 | 17502070 |
| chr_2 | g6532 | g6532.t1 | cds | g6532.t1.CDS4 | 17501698 | 17502070 |
| chr_2 | g6532 | g6532.t1 | exon | g6532.t1.exon5 | 17502178 | 17502441 |
| chr_2 | g6532 | g6532.t1 | cds | g6532.t1.CDS5 | 17502178 | 17502441 |
| chr_2 | g6532 | g6532.t1 | TSS | g6532.t1 | 17502542 | 17502542 |
Sequences
>g6532.t1 Gene=g6532 Length=1224
ATGAATATAATATTAATTATCTCAATCATTGTGCCGATAATTTATTTCGCGGTTACTTCT
AAACCATGTGTTGTTTATCGTTATGAAGAAAGCACTGTACTTACTACTACTCCAACTACA
ACAATTACTTCAGAACCTGATGATTTAATTATTTCAAGAGATGAATGGGATGCAGATCCA
CCAAAGTTTGAAATTCCTGCTTTAGCAGGTCCAGTTAAAAGAATAATGATTGCTCAAACA
GGAGGAGATTCTTGTGATAATGAGGTTAATTGCAAAAAACTTGTCAAAGAAATTCAAACA
GAAAATTCAGACCTTGATGATATTCCATACAATTTTTTGATCGGTGGTGATGGTAAAGTT
TATGAAGGAAGAGGATTTGAATTTCAAGGAGAACATACAGCAAATTTATATGGAACGGAA
TTTAATTCAATTGGAATTTGTATTGCATTTATTGGAAATTATAAAACAAAAAAACCATCA
GAGAGTGAACTAAAAGCCTTTGAGCTTTTTTTTGAATATTATTCAGAAAAATTAACAAAA
GATTACATCATTTTATCTCAAGATGATTTGATTTTTAACAAAGTTAAGGCTCAAACTCTT
AATGATGCTATTAAAAATTTGCCAAATTTTAAGTCTTTAACTAAAGTATACCGACGAGAA
GAATATGAAGCATTACCTCCAGTTGGAACTCTAAAAAAATTTGATAGACTTATAGATTGG
GTTATTGTATCACAAATACCAAATGAATGTAATAACACTGTGGATTGTTTTGATATTGTA
AATGAATTGCAAATGGAAAACGAAGAACTTTGTGATATTTCTTTCAACTTCATAATTGGT
GGTGATGGAATTATAATTGAAGGTCGGGGATGGGATACAGCTGCAGCGGCATATTTCGAT
CATTTCAATTCTTTCAATTCTAGGTCAATTAGCATAGGAGTGATTGTGTATAATGAAGAA
GAAGTATATACTAATAGTATTTTTGATTCACTTAAGAGTTTGTTAAAGGATGCTAAAATT
TTGGGAAAACTGCCTGAAAATTTCAAAATCAATGGACTGCAAGACTTTAATCTTATGGGA
CCAACAAATGCTTTAATGGATAAAATAAAAGAAATGAAAGAATATGAAAAAATAGAAAAT
GAAGAAAAATGTAGAGTATCCACTACTTCAACCAGTACAACTACAATAGATGATGCTGAA
GAGATAACTACACTAAATGAATAA
>g6532.t1 Gene=g6532 Length=407
MNIILIISIIVPIIYFAVTSKPCVVYRYEESTVLTTTPTTTITSEPDDLIISRDEWDADP
PKFEIPALAGPVKRIMIAQTGGDSCDNEVNCKKLVKEIQTENSDLDDIPYNFLIGGDGKV
YEGRGFEFQGEHTANLYGTEFNSIGICIAFIGNYKTKKPSESELKAFELFFEYYSEKLTK
DYIILSQDDLIFNKVKAQTLNDAIKNLPNFKSLTKVYRREEYEALPPVGTLKKFDRLIDW
VIVSQIPNECNNTVDCFDIVNELQMENEELCDISFNFIIGGDGIIIEGRGWDTAAAAYFD
HFNSFNSRSISIGVIVYNEEEVYTNSIFDSLKSLLKDAKILGKLPENFKINGLQDFNLMG
PTNALMDKIKEMKEYEKIENEEKCRVSTTSTSTTTIDDAEEITTLNE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g6532.t1 | CDD | cd06583 | PGRP | 71 | 191 | 5.06544E-21 |
| 9 | g6532.t1 | Gene3D | G3DSA:3.40.80.10 | Lysozyme | 45 | 196 | 1.2E-32 |
| 10 | g6532.t1 | Gene3D | G3DSA:3.40.80.10 | Lysozyme | 210 | 359 | 1.7E-19 |
| 3 | g6532.t1 | PANTHER | PTHR11022 | PEPTIDOGLYCAN RECOGNITION PROTEIN | 39 | 211 | 5.1E-56 |
| 5 | g6532.t1 | PANTHER | PTHR11022:SF67 | PEPTIDOGLYCAN-RECOGNITION PROTEIN LB-RELATED | 39 | 211 | 5.1E-56 |
| 4 | g6532.t1 | PANTHER | PTHR11022 | PEPTIDOGLYCAN RECOGNITION PROTEIN | 214 | 375 | 5.1E-56 |
| 6 | g6532.t1 | PANTHER | PTHR11022:SF67 | PEPTIDOGLYCAN-RECOGNITION PROTEIN LB-RELATED | 214 | 375 | 5.1E-56 |
| 1 | g6532.t1 | Pfam | PF01510 | N-acetylmuramoyl-L-alanine amidase | 71 | 178 | 2.3E-8 |
| 2 | g6532.t1 | Pfam | PF01510 | N-acetylmuramoyl-L-alanine amidase | 268 | 345 | 1.4E-5 |
| 12 | g6532.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 13 | g6532.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 14 | g6532.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 15 | g6532.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 11 | g6532.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 407 | - |
| 19 | g6532.t1 | SMART | SM00701 | pgrp | 48 | 191 | 3.7E-26 |
| 18 | g6532.t1 | SMART | SM00701 | pgrp | 214 | 357 | 4.5E-6 |
| 8 | g6532.t1 | SUPERFAMILY | SSF55846 | N-acetylmuramoyl-L-alanine amidase-like | 50 | 212 | 7.59E-32 |
| 7 | g6532.t1 | SUPERFAMILY | SSF55846 | N-acetylmuramoyl-L-alanine amidase-like | 215 | 375 | 2.36E-19 |
| 17 | g6532.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 2 | 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: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.
