General information for g2276.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 g2276 is located on chr_3: 16393517..16395679 (+ 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_3 | g2276 | g2276.t1 | isoform | g2276.t1 | 16393517 | 16395679 |
| chr_3 | g2276 | g2276.t1 | exon | g2276.t1.exon1 | 16393517 | 16393715 |
| chr_3 | g2276 | g2276.t1 | cds | g2276.t1.CDS1 | 16393517 | 16393715 |
| chr_3 | g2276 | g2276.t1 | exon | g2276.t1.exon2 | 16393868 | 16393987 |
| chr_3 | g2276 | g2276.t1 | cds | g2276.t1.CDS2 | 16393868 | 16393987 |
| chr_3 | g2276 | g2276.t1 | exon | g2276.t1.exon3 | 16394052 | 16394978 |
| chr_3 | g2276 | g2276.t1 | cds | g2276.t1.CDS3 | 16394052 | 16394978 |
| chr_3 | g2276 | g2276.t1 | exon | g2276.t1.exon4 | 16395034 | 16395158 |
| chr_3 | g2276 | g2276.t1 | cds | g2276.t1.CDS4 | 16395034 | 16395158 |
| chr_3 | g2276 | g2276.t1 | exon | g2276.t1.exon5 | 16395220 | 16395316 |
| chr_3 | g2276 | g2276.t1 | cds | g2276.t1.CDS5 | 16395220 | 16395316 |
| chr_3 | g2276 | g2276.t1 | exon | g2276.t1.exon6 | 16395375 | 16395679 |
| chr_3 | g2276 | g2276.t1 | cds | g2276.t1.CDS6 | 16395375 | 16395679 |
| chr_3 | g2276 | g2276.t1 | TSS | g2276.t1 | NA | NA |
| chr_3 | g2276 | g2276.t1 | TTS | g2276.t1 | NA | NA |
Sequences
>g2276.t1 Gene=g2276 Length=1773
ATGGAAAAAATAAATAGTGACCTTTATGAACGAAGTTGTTCGGATGAGTGTAGCGGTTCA
TTTTCCACTATTGCTAGTTCCGCTGCTGCAGAACAATTAAAACAATTTTTATATTTAGCA
AGATTAGGGAAATATTGTGCCAAATTATTCCAATTATTCATCAAATTGATAGATAATAAT
AGTCAAAATCAAAAAAAAAGTGGAAATTCAAGTTTAAATTACAATCAATTTGGAATTGTC
AATAATCTTTCTAATATTCGTCTTGAGGGCAATGGAAACATTAATGTTATTTACAATACT
TATAATAACTCATCAAAAGATAGGCAAAATGAGAACATTCGAGAAAAAAAAAACGTGCAA
ATTGACTCAATTGTGTCCGATAATTTTATGGAACCAAGAAAATGTTTTAGCGGCAAAAAT
AGAAAACGAAATATTTTGATTACTATATCTTTGATAAGTGCTATAGCATTAACATCAATT
ATTGTGCCAATCACTTATGTTTTTTTTGCTGATAAGCAAGATAATCTCGATGATACTACT
GTTACTACTTCTACTACTACTGAACTTACAACTACATCAGATAGCAATCAAACATTATCA
TTTTTTCCTACTATTACTACTACTACTACTACTACTGAACATACAACTACATCAGATAGC
AATCAAACATTATCATTTTTTCCTACTATTACTACTACTACTACTACTACTGAACTTACA
ACTACATCAGATAGCAATCAAATATTATCATTGTTTTTAATTTCTAGAAAAGAATGGAAT
GCAAATCCACCAAAATCTGTTATTCCTAATTTGTCAAATCCAATAAAAAGAGTTATTGTG
ACACATACAGAAGGAATTTCATGCGATAATGAAGAATATTGTAAAGCAGTAGTGAAACAA
ATTCAAATTACAAATGAAAATCTCGATGATATTCCTTACAATTTCTTGATTGGTGCAGAT
GGAAGAGTTTATGAAGGAAGAGGATTTGAATTTCAAGGAGAATGTACTACAAATTTATAT
GCAACAGAATATAATTCGATTGGAATTTGTGTTGCTTTTATTGGAAATTTTTCAACAATT
TCACCTTCTTTTATTCAGCTTTTAGTTTTTCAGTATTTCGTTACAAATTTTATTGGAGCA
TTTGAAAAAGATTTTATAATCGTTTTACAAGATGATTTAGTATTTAAAAATATAAGAGCA
AATGCTTTGAATGTAGCTGTCAGTAGAATGAGAAATTTCTATCCATTACAAAAAATCTAT
CGAAGAGAAGAATGGGAAGCATCAAACCCAGCAAGTGTACATACAAAGTTTAGTCAAAAA
AAAGAAATTGCATTACTTTTACACACAGTCACTCAAACTTGCAGTTTGTTTTCTGATTGT
GCAACAAGAATGAGAATGATGCAAGCAGGCCATATGAATAATCAGGGATGGATTGATTTA
GCATTCAATTTTGCTATAGGAGCAAATGGATTGATTTATGAAGTACGTGGGTTTGACAAT
GTTGGTGCACATTTAAGTGGTTTTAATTCAAAATCAATCGGAATTGCAGCAATAGGAGAT
TTTGATGTTGATGAACCGAGTCAAGAAATGCTTGATGCGCTTAAAATATTCTTAGATGAT
GCTGTTATGTTAGGAAAATTGCCTGAAGATTTCAAAGTATATGGAAGAAATGATTTTGGT
TGGGGAGGTCCAGGAAAAAACATAATGAAATATATCAGACAATGGTGTCGATATGGAAAT
AGAACAGAGCCTTGTGATATTTCTGGTAATTAG
>g2276.t1 Gene=g2276 Length=590
MEKINSDLYERSCSDECSGSFSTIASSAAAEQLKQFLYLARLGKYCAKLFQLFIKLIDNN
SQNQKKSGNSSLNYNQFGIVNNLSNIRLEGNGNINVIYNTYNNSSKDRQNENIREKKNVQ
IDSIVSDNFMEPRKCFSGKNRKRNILITISLISAIALTSIIVPITYVFFADKQDNLDDTT
VTTSTTTELTTTSDSNQTLSFFPTITTTTTTTEHTTTSDSNQTLSFFPTITTTTTTTELT
TTSDSNQILSLFLISRKEWNANPPKSVIPNLSNPIKRVIVTHTEGISCDNEEYCKAVVKQ
IQITNENLDDIPYNFLIGADGRVYEGRGFEFQGECTTNLYATEYNSIGICVAFIGNFSTI
SPSFIQLLVFQYFVTNFIGAFEKDFIIVLQDDLVFKNIRANALNVAVSRMRNFYPLQKIY
RREEWEASNPASVHTKFSQKKEIALLLHTVTQTCSLFSDCATRMRMMQAGHMNNQGWIDL
AFNFAIGANGLIYEVRGFDNVGAHLSGFNSKSIGIAAIGDFDVDEPSQEMLDALKIFLDD
AVMLGKLPEDFKVYGRNDFGWGGPGKNIMKYIRQWCRYGNRTEPCDISGN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g2276.t1 | CDD | cd06583 | PGRP | 274 | 367 | 1.66224E-16 |
| 12 | g2276.t1 | CDD | cd06583 | PGRP | 448 | 559 | 7.37305E-27 |
| 7 | g2276.t1 | Gene3D | G3DSA:3.40.80.10 | Lysozyme | 246 | 394 | 7.1E-31 |
| 8 | g2276.t1 | Gene3D | G3DSA:3.40.80.10 | Lysozyme | 408 | 584 | 7.0E-39 |
| 4 | g2276.t1 | PANTHER | PTHR11022 | PEPTIDOGLYCAN RECOGNITION PROTEIN | 251 | 367 | 1.9E-68 |
| 3 | g2276.t1 | PANTHER | PTHR11022 | PEPTIDOGLYCAN RECOGNITION PROTEIN | 416 | 578 | 1.9E-68 |
| 2 | g2276.t1 | Pfam | PF01510 | N-acetylmuramoyl-L-alanine amidase | 273 | 359 | 9.1E-6 |
| 1 | g2276.t1 | Pfam | PF01510 | N-acetylmuramoyl-L-alanine amidase | 468 | 559 | 1.3E-9 |
| 9 | g2276.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 144 | - |
| 11 | g2276.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 145 | 169 | - |
| 10 | g2276.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 170 | 590 | - |
| 15 | g2276.t1 | SMART | SM00701 | pgrp | 251 | 394 | 7.9E-24 |
| 16 | g2276.t1 | SMART | SM00701 | pgrp | 417 | 560 | 1.8E-35 |
| 6 | g2276.t1 | SUPERFAMILY | SSF55846 | N-acetylmuramoyl-L-alanine amidase-like | 252 | 381 | 5.89E-28 |
| 5 | g2276.t1 | SUPERFAMILY | SSF55846 | N-acetylmuramoyl-L-alanine amidase-like | 418 | 578 | 1.7E-40 |
| 14 | g2276.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 145 | 167 | - |
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