General information for g1438.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Myrosinase 1.
Parent gene
- The parent gene g1438 is located on chr_3: 10984016..10985455 (- 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 | g1438 | g1438.t1 | isoform | g1438.t1 | 10984016 | 10985455 |
| chr_3 | g1438 | g1438.t1 | exon | g1438.t1.exon1 | 10984016 | 10984164 |
| chr_3 | g1438 | g1438.t1 | cds | g1438.t1.CDS1 | 10984016 | 10984164 |
| chr_3 | g1438 | g1438.t1 | exon | g1438.t1.exon2 | 10984223 | 10984312 |
| chr_3 | g1438 | g1438.t1 | cds | g1438.t1.CDS2 | 10984223 | 10984312 |
| chr_3 | g1438 | g1438.t1 | exon | g1438.t1.exon3 | 10984400 | 10984436 |
| chr_3 | g1438 | g1438.t1 | cds | g1438.t1.CDS3 | 10984400 | 10984436 |
| chr_3 | g1438 | g1438.t1 | exon | g1438.t1.exon4 | 10984497 | 10984889 |
| chr_3 | g1438 | g1438.t1 | cds | g1438.t1.CDS4 | 10984497 | 10984889 |
| chr_3 | g1438 | g1438.t1 | exon | g1438.t1.exon5 | 10984948 | 10985076 |
| chr_3 | g1438 | g1438.t1 | cds | g1438.t1.CDS5 | 10984948 | 10985076 |
| chr_3 | g1438 | g1438.t1 | exon | g1438.t1.exon6 | 10985128 | 10985297 |
| chr_3 | g1438 | g1438.t1 | cds | g1438.t1.CDS6 | 10985128 | 10985297 |
| chr_3 | g1438 | g1438.t1 | exon | g1438.t1.exon7 | 10985356 | 10985455 |
| chr_3 | g1438 | g1438.t1 | cds | g1438.t1.CDS7 | 10985356 | 10985455 |
| chr_3 | g1438 | g1438.t1 | TSS | g1438.t1 | NA | NA |
| chr_3 | g1438 | g1438.t1 | TTS | g1438.t1 | NA | NA |
Sequences
>g1438.t1 Gene=g1438 Length=1068
ATGAAGACTTTAATTTTTATAACAATTTTAATAGTTACTGTCAGTAGTGAAATTAAAAGA
TATTCTTTTCCTGATGATTTCTTATTTGGTGCTGCAACAGCAAGTTATCAAATCGAAGGG
GCATGGAATGTAGATGGAAAAATTCCCAGCATTTGGGACACAGCATCACATAGAAATCCA
TCAAGTGTTGATGATGGATCAACTGGTGATGATGCGGGAATGTCTTATTATTATTATGAA
AAAGATATTCAAGCATTAAAAGATATTGGGTTCAAAGTCTATCGATTTTCAATTGCATGG
ACACGAATGTTAACGAAATCAAACCAAGTTAATCAAAAGGGAATTGATTATTACAATAAA
TTAATTGATCGATTGAAAGAAGAAGGAATTGAACCAATGCTATCATTGGATTTACCTCAA
TATCTTCAAGATTTGGGTGGTTGGACAAATCCAAGAATTGTAAAATATTTTGAAATCTTT
GCTGATCTTGCTTTCAAGTCTTTTGGTGATCGTGTAAAAGAATGGATAACTTTTAATGAG
CCAAGTGTCTTTTGTGATGAAGGTTATGGTTGGGCACTCCATGCACCTGAAATTCGAACT
GATAAAAATATCGGAAATTATTTATGTACTCACCATTGTTTATTAGCACATGCATCAGCT
TATCGCATGTATAAAGAAAAAATATTCCCATCACAGCAAGGCAAAGTTGGTATTTGTTTG
AATTCAGGTTTCAATTATCCGTACAACTCAACTGTTACCCAAGAAACTGTCGATAAAGCA
GTTAATTTTTATTTAGGAAGATTTGCAAATGCAATTTTTACCGAAGAAGCTCAAATAGAA
AGCTTTAAAAGATCAGCTGATTTTTTGGCTATAAATTATTATTCAAGTAATTTTGTTGTA
CCTTTTGATTTACTTCCGGGTTGGGACCCAGCAGGAAGTGATAATGAAATTTGGGGATTT
CATGATCCAGCAATTTGGAAAAGAGCTAAAAGCGTGTGGCTCTATCAGGTTCCAGATGGT
TTGCGTGATTTGCTGATATGGATAAAAGATCACTACAATATCCATTAG
>g1438.t1 Gene=g1438 Length=355
MKTLIFITILIVTVSSEIKRYSFPDDFLFGAATASYQIEGAWNVDGKIPSIWDTASHRNP
SSVDDGSTGDDAGMSYYYYEKDIQALKDIGFKVYRFSIAWTRMLTKSNQVNQKGIDYYNK
LIDRLKEEGIEPMLSLDLPQYLQDLGGWTNPRIVKYFEIFADLAFKSFGDRVKEWITFNE
PSVFCDEGYGWALHAPEIRTDKNIGNYLCTHHCLLAHASAYRMYKEKIFPSQQGKVGICL
NSGFNYPYNSTVTQETVDKAVNFYLGRFANAIFTEEAQIESFKRSADFLAINYYSSNFVV
PFDLLPGWDPAGSDNEIWGFHDPAIWKRAKSVWLYQVPDGLRDLLIWIKDHYNIH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g1438.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 7 | 355 | 5.3E-113 |
| 2 | g1438.t1 | PANTHER | PTHR10353:SF36 | CYTOSOLIC BETA-GLUCOSIDASE | 15 | 353 | 2.3E-95 |
| 3 | g1438.t1 | PANTHER | PTHR10353 | GLYCOSYL HYDROLASE | 15 | 353 | 2.3E-95 |
| 1 | g1438.t1 | Pfam | PF00232 | Glycosyl hydrolase family 1 | 21 | 274 | 8.5E-81 |
| 9 | g1438.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 10 | g1438.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 11 | g1438.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 12 | - |
| 12 | g1438.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 16 | - |
| 8 | g1438.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 355 | - |
| 5 | g1438.t1 | ProSitePatterns | PS00653 | Glycosyl hydrolases family 1 N-terminal signature. | 27 | 41 | - |
| 4 | g1438.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 21 | 354 | 1.59E-97 |
| 6 | g1438.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 16 | - |
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:0004553 | hydrolase activity, hydrolyzing O-glycosyl compounds | MF |
| GO:0005975 | carbohydrate metabolic 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