General information for g6527.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Peptidoglycan recognition protein 4.
Parent gene
- The parent gene g6527 is located on chr_2: 17485079..17487903 (- 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 | g6527 | g6527.t2 | isoform | g6527.t2 | 17485079 | 17487903 |
| chr_2 | g6527 | g6527.t2 | exon | g6527.t2.exon1 | 17485079 | 17485368 |
| chr_2 | g6527 | g6527.t2 | cds | g6527.t2.CDS1 | 17485079 | 17485368 |
| chr_2 | g6527 | g6527.t2 | exon | g6527.t2.exon2 | 17485422 | 17485436 |
| chr_2 | g6527 | g6527.t2 | cds | g6527.t2.CDS2 | 17485422 | 17485436 |
| chr_2 | g6527 | g6527.t2 | exon | g6527.t2.exon3 | 17485504 | 17485585 |
| chr_2 | g6527 | g6527.t2 | cds | g6527.t2.CDS3 | 17485504 | 17485585 |
| chr_2 | g6527 | g6527.t2 | exon | g6527.t2.exon4 | 17485644 | 17485768 |
| chr_2 | g6527 | g6527.t2 | cds | g6527.t2.CDS4 | 17485644 | 17485768 |
| chr_2 | g6527 | g6527.t2 | exon | g6527.t2.exon5 | 17486817 | 17487903 |
| chr_2 | g6527 | g6527.t2 | cds | g6527.t2.CDS5 | 17486817 | 17487903 |
| chr_2 | g6527 | g6527.t2 | TSS | g6527.t2 | NA | NA |
| chr_2 | g6527 | g6527.t2 | TTS | g6527.t2 | NA | NA |
Sequences
>g6527.t2 Gene=g6527 Length=1599
ATGGAAGGAACCAGTAGTGATATTCATGAACGAAAACGTCCAGTAGTTAGAAATGATTCT
TTTTCGACAATCGCTAGTTCTGCAGCAGCAGAACAGATGAAGCAATTTACATACGTTGGT
GGAAATCAAGATTCAAATAACAATCAACTTGGAATTGTCAACAATCAAACCAGTATTCGA
CTTGAGGGCAGTGAAAAAATTCACGTTGGTGACGTAATTCATTATATTTATGATTCATCA
GAAGGTGATCTATATATAAAACTTTTTTTCAAACATTTAATAAGTAGAATCCCTTTAGTT
CCAAGTTCACAAAACGAAATCATTCGAGAAAGAAGAAAATCACAAACTGACTCAAGTGTA
TCCGATAATTTTACAAAATCAACGACATGTTTTAGCGGAAAAAATAGAAAGCGAAATATT
TTGATAATTGTATTTGTGATAACTGCTATATCTTTGATATCAATTGTTGTTCCAATCATC
TATATTTTACTCTCTAATGAGCAAGACAATCCTGATGATACCACTACTACTACTACTACT
ACTACTACTACTACTGAACCCACAACTACAACGCGTTATAGAGTTATACCAGATTTTTTT
GTTTCAAGAAATGAATGGGATGCAAATCCTCCAAAGTCAGGTATACCAAATTTATTAAAT
CCAATTAAAAGAGTTATTGTAGCACATACAGAAGGAAGTTCATGCAACAATGAAGAAGAT
TGCAAAGCTCTAGTAAGGGAAATCCAAATTTCTAATGAAAATCTACATGATATTCCTTAT
AATTTTCTAATTGGTGGTGATGGAAGAATTTATGAAGGAAGAGGATTTGACAAAGAAGGA
GAGCATACAGCAAATTTACATGGAACTGAATATAATACGATAGGAATTTGTGTTGCTTTC
ATTGGAAATTTTTCAACTACTTCACCTTCTGGTAATCAACTTGGTGTTTTTGAGCATTTC
CTTGAATATTTTGAAGATGAATTTACAAAAGATTTCATCATTATTTTACAAGATGATTTA
GTTTATAAAAATATCAGAGCAAATGCTCTTAATGAAGCTATCAGTAGAATGAAAAATTTT
TATGGACTACAAAAAATATATCGAAGAGAAGAATGGAATGCACAGGCTCCAACTCAACCA
TTTACATCTTATACCCAAAAGAAAGAAATGGCATTGCTTTCACATACAGTGACTGGAACT
TGTAACAATTATTCTACTTGTGCAACATTGATAAGAAATATCCAAAGAGGAAATATAAAC
AATCAAGGTTTTATTGATCTTGCTTATAATTTTGGTATCGGTGGTGATGGGTCGATTTTT
GAAGCACGTGGTTTCGACAACGTCGGTGCACATATGGCCAATTTCAATTCAAAATCAATT
GGAATAGGAGCAATGGGACAATTTGATATTGATGAGCCGACTCTTGAAATGCTTGATGCA
CTTGAAAAATTTCTAGAAGATGCTGCAAAATTAGGAAAATTACCTGAAGATTACAAAGTA
CATGGAAGACAAGATTTTGGTTATAATGGTCCAGGAGAAAATATTATGAAACATATCCGA
GAATGGTGTCGATATGGAAATAGGACAATACCATGTTAA
>g6527.t2 Gene=g6527 Length=532
MEGTSSDIHERKRPVVRNDSFSTIASSAAAEQMKQFTYVGGNQDSNNNQLGIVNNQTSIR
LEGSEKIHVGDVIHYIYDSSEGDLYIKLFFKHLISRIPLVPSSQNEIIRERRKSQTDSSV
SDNFTKSTTCFSGKNRKRNILIIVFVITAISLISIVVPIIYILLSNEQDNPDDTTTTTTT
TTTTTEPTTTTRYRVIPDFFVSRNEWDANPPKSGIPNLLNPIKRVIVAHTEGSSCNNEED
CKALVREIQISNENLHDIPYNFLIGGDGRIYEGRGFDKEGEHTANLHGTEYNTIGICVAF
IGNFSTTSPSGNQLGVFEHFLEYFEDEFTKDFIIILQDDLVYKNIRANALNEAISRMKNF
YGLQKIYRREEWNAQAPTQPFTSYTQKKEMALLSHTVTGTCNNYSTCATLIRNIQRGNIN
NQGFIDLAYNFGIGGDGSIFEARGFDNVGAHMANFNSKSIGIGAMGQFDIDEPTLEMLDA
LEKFLEDAAKLGKLPEDYKVHGRQDFGYNGPGENIMKHIREWCRYGNRTIPC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g6527.t2 | CDD | cd06583 | PGRP | 221 | 323 | 1.25248E-21 |
| 15 | g6527.t2 | CDD | cd06583 | PGRP | 389 | 506 | 9.21342E-25 |
| 10 | g6527.t2 | Gene3D | G3DSA:3.40.80.10 | Lysozyme | 199 | 357 | 2.7E-33 |
| 9 | g6527.t2 | Gene3D | G3DSA:3.40.80.10 | Lysozyme | 358 | 529 | 2.9E-39 |
| 4 | g6527.t2 | PANTHER | PTHR11022 | PEPTIDOGLYCAN RECOGNITION PROTEIN | 181 | 323 | 1.1E-73 |
| 6 | g6527.t2 | PANTHER | PTHR11022:SF67 | PEPTIDOGLYCAN-RECOGNITION PROTEIN LB-RELATED | 181 | 323 | 1.1E-73 |
| 3 | g6527.t2 | PANTHER | PTHR11022 | PEPTIDOGLYCAN RECOGNITION PROTEIN | 341 | 525 | 1.1E-73 |
| 5 | g6527.t2 | PANTHER | PTHR11022:SF67 | PEPTIDOGLYCAN-RECOGNITION PROTEIN LB-RELATED | 341 | 525 | 1.1E-73 |
| 1 | g6527.t2 | Pfam | PF01510 | N-acetylmuramoyl-L-alanine amidase | 220 | 318 | 5.6E-8 |
| 2 | g6527.t2 | Pfam | PF01510 | N-acetylmuramoyl-L-alanine amidase | 391 | 504 | 3.4E-11 |
| 11 | g6527.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 139 | - |
| 13 | g6527.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 140 | 164 | - |
| 12 | g6527.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 165 | 532 | - |
| 17 | g6527.t2 | SMART | SM00701 | pgrp | 201 | 341 | 2.1E-27 |
| 18 | g6527.t2 | SMART | SM00701 | pgrp | 364 | 507 | 1.3E-32 |
| 19 | g6527.t2 | SMART | SM00644 | ami_2 | 378 | 512 | 0.001 |
| 8 | g6527.t2 | SUPERFAMILY | SSF55846 | N-acetylmuramoyl-L-alanine amidase-like | 199 | 362 | 9.6E-34 |
| 7 | g6527.t2 | SUPERFAMILY | SSF55846 | N-acetylmuramoyl-L-alanine amidase-like | 365 | 525 | 3.01E-41 |
| 16 | g6527.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 140 | 162 | - |
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 transcript has been annotated with K01446 (peptidoglycan recognition protein)
Pathway
- This transcript belongs to the following 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