General information for g10465.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10465 is located on chr_1: 9978080..9979320 (+ 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_1 | g10465 | g10465.t6 | TSS | g10465.t6 | 9978017 | 9978017 |
| chr_1 | g10465 | g10465.t6 | isoform | g10465.t6 | 9978080 | 9979320 |
| chr_1 | g10465 | g10465.t6 | exon | g10465.t6.exon1 | 9978080 | 9978595 |
| chr_1 | g10465 | g10465.t6 | cds | g10465.t6.CDS1 | 9978080 | 9978595 |
| chr_1 | g10465 | g10465.t6 | exon | g10465.t6.exon2 | 9978798 | 9978906 |
| chr_1 | g10465 | g10465.t6 | cds | g10465.t6.CDS2 | 9978798 | 9978906 |
| chr_1 | g10465 | g10465.t6 | exon | g10465.t6.exon3 | 9979031 | 9979320 |
| chr_1 | g10465 | g10465.t6 | cds | g10465.t6.CDS3 | 9979031 | 9979044 |
| chr_1 | g10465 | g10465.t6 | TTS | g10465.t6 | 9979390 | 9979390 |
Sequences
>g10465.t6 Gene=g10465 Length=915
ATGTTTCAAAAAAATCACAATTGTACACCACAAAATAATGATTTTAATCAATCGATAGTT
GAAACGCAAAATATTAATCAAAGTAGTACAAAAATGAATGATGTGAGCTTAAATAATTCT
TCACATATTCAGATGGGAACAAGAGTCATCTATAATGGTCCGGTGATGATATCAAATTCA
ATACAAAATAGTGAGACAAACAAAATATATAAATGTGGTTGTTGTGATATTTCTCAGAAA
ACACTTAAGAGAATTCTCAATTTATTTGCTATGGTTTTTGTTGTACTTCTTTCTACATTT
GTAGTTCTTGCTTTTTTCCTAAGAAATACTCATGATAATAAAAGTGAAATTCTGAAACCT
GAAATTAAATTAAAAACACCGTCAAATTCAGAAATTTATAGATTTTATACTAGAGAAGAT
TGGAATGCAAGTAAAGCTGAGCCTTATTTTAAATTAATTCATCCTATTAAGAGAGTTATT
ATTTCTCATACAGTCATGAGAGAATGTTATGTTGAGAAAGAATGCATATGGATTGTGCAA
GAAATACAAAGACTTCATAAAAATTGGGATTTTGGTGATATTGGATTTAATTTTGTCATC
ATGAATGATGGAAGCATTTTTGAAGTGAATTTCATTTAAATGCTTTTTTTCAATTCAGGC
TTTAATAATAACAGTATAGGTATCGTATACAATGGCAATTTTCAAACTCAAAGTCCACCA
CAAAAGCAAATTCTTGCGGGATTTTCTTTACTTGAAGAAGGAGTTCGTTTAGGAAAATTA
TCACCAGATTTTAAAATCTATGGAATGCGACAATTTCAAAGTAATGAAAGTCCTGGTGAA
GCTTTCTTTCAAATGATTAAAACATGGAAAAATTGGTCTGAAGATATTGATGAATGTTGT
CCAAAACCAACATAA
>g10465.t6 Gene=g10465 Length=212
MFQKNHNCTPQNNDFNQSIVETQNINQSSTKMNDVSLNNSSHIQMGTRVIYNGPVMISNS
IQNSETNKIYKCGCCDISQKTLKRILNLFAMVFVVLLSTFVVLAFFLRNTHDNKSEILKP
EIKLKTPSNSEIYRFYTREDWNASKAEPYFKLIHPIKRVIISHTVMRECYVEKECIWIVQ
EIQRLHKNWDFGDIGFNFVIMNDGSIFEVNFI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10465.t6 | Gene3D | G3DSA:3.40.80.10 | Lysozyme | 128 | 210 | 1.5E-18 |
| 1 | g10465.t6 | PANTHER | PTHR11022 | PEPTIDOGLYCAN RECOGNITION PROTEIN | 22 | 208 | 7.8E-17 |
| 2 | g10465.t6 | PANTHER | PTHR11022:SF67 | PEPTIDOGLYCAN-RECOGNITION PROTEIN LB-RELATED | 22 | 208 | 7.8E-17 |
| 6 | g10465.t6 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 84 | - |
| 8 | g10465.t6 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 85 | 107 | - |
| 7 | g10465.t6 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 108 | 212 | - |
| 4 | g10465.t6 | SUPERFAMILY | SSF55846 | N-acetylmuramoyl-L-alanine amidase-like | 133 | 208 | 6.72E-18 |
| 3 | g10465.t6 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 85 | 107 | - |
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: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