General information for g1442.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Myrosinase 1.
Parent gene
- The parent gene g1442 is located on chr_3: 10995762..10997579 (- 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 | g1442 | g1442.t1 | isoform | g1442.t1 | 10995762 | 10997579 |
| chr_3 | g1442 | g1442.t1 | exon | g1442.t1.exon1 | 10995762 | 10995988 |
| chr_3 | g1442 | g1442.t1 | cds | g1442.t1.CDS1 | 10995762 | 10995988 |
| chr_3 | g1442 | g1442.t1 | exon | g1442.t1.exon2 | 10996092 | 10996401 |
| chr_3 | g1442 | g1442.t1 | cds | g1442.t1.CDS2 | 10996092 | 10996401 |
| chr_3 | g1442 | g1442.t1 | exon | g1442.t1.exon3 | 10996459 | 10996649 |
| chr_3 | g1442 | g1442.t1 | cds | g1442.t1.CDS3 | 10996459 | 10996649 |
| chr_3 | g1442 | g1442.t1 | exon | g1442.t1.exon4 | 10996706 | 10996908 |
| chr_3 | g1442 | g1442.t1 | cds | g1442.t1.CDS4 | 10996706 | 10996908 |
| chr_3 | g1442 | g1442.t1 | exon | g1442.t1.exon5 | 10997044 | 10997180 |
| chr_3 | g1442 | g1442.t1 | cds | g1442.t1.CDS5 | 10997044 | 10997180 |
| chr_3 | g1442 | g1442.t1 | exon | g1442.t1.exon6 | 10997251 | 10997420 |
| chr_3 | g1442 | g1442.t1 | cds | g1442.t1.CDS6 | 10997251 | 10997420 |
| chr_3 | g1442 | g1442.t1 | exon | g1442.t1.exon7 | 10997480 | 10997579 |
| chr_3 | g1442 | g1442.t1 | cds | g1442.t1.CDS7 | 10997480 | 10997579 |
| chr_3 | g1442 | g1442.t1 | TSS | g1442.t1 | NA | NA |
| chr_3 | g1442 | g1442.t1 | TTS | g1442.t1 | NA | NA |
Sequences
>g1442.t1 Gene=g1442 Length=1338
ATGATCATTTTTAAAATTTTCACTTTTATTAATTTAAGTACTTTAGTTTTTGCTGAAATT
TATAATTTTCCTAATAATTTTATTTGGGGTGCTGCTTCAGCAAGTTATCAAATCGAAGGA
GCATGGAATGTCGATGGAAAAATTCCCAGCATTTGGGACACAGCATCACATAAAAATAAT
TCAAGTATTAGAGATGGATCAACTGGTGATGATGCGGGAATGTCTTATTATTATTATGAA
AAAGATATTCAAGCATTAAAAGATATTGGATTCGAAGTCTATCGATTTTCAATTGCATGG
ACAAGAATTTTGACAAAAGCAAATCAAGTTAATCAAAAGGGAATTGATTATTACAATAAA
GTTATTGACGGATTATTAGATGTAGGAATTCAACCACTGGTTACAATGTATCATTGGGAT
TTACCTCAATATCTTCAAGATTTGGGAGGTTGGACAAATCCAGCTATTGTAAAATATTTT
GAAGTTTACGCAGATACACTTTTTGCATCTTTTGGTGATCGTGTAGAAGAATGGATAACT
TTTAATGAACCAAAAACATTTTGCAATGGCGGTTATGGAGAAGGTTGGGACGCTCCTGAA
ATTAAAACAGTTGGTAATATTGGTAGTTATTTGTGCTCTCATCATGTCCTATTAGCTCAT
GCAAATGTCTATCATTTATATAAGAACAAATATTTCACTAAACAACAAGGAAAAGTTGGA
ATTTGTCTTGATACTACTTTTAGTTTTCCTGCAAATGAAAATGTAACCGATGAACTTGTT
GATAAGGCAATGCATTTCAGTCTTGGTCGTTATGCAAATCCAATTTATTCAGCTGATGGT
GATTATCCAAGTGTTATGCGTGAAGCAATTGATCAAAAGAGTGAAAATGAAGGGAGAAGA
TGGTCAAGACTTCCACATTTTACAACAGCTCAAATAGAAAGCCTTCATGGTGCTGCTGAC
TTTTTAGCTTTGAACTACTACACAAGTAGCCTTATTCAACCTTATTCACATCTTGGTTGG
AATATAGCTGATAGTGATAGTGAAATTCATTCATTTCATGATGACAGTTGGAAAAGAAGT
GCAAGTTCGTGGTTAGTGTCGGTTCCTGAAGATGATGGTCGTGTTGAATATTTAAGAGAA
CATCTTGCTACAATGTCTCGAGCAATTACTGATGGTTGTAGAGTTGAAGCTTATACAGTT
TGGAGTTTAACAGATAATTTCGAATGGATGAAAGGTTATACAGAGAGATTTGGAATTTAT
GCAATTAATTTTACTGATCCTGAAAGACCAAGAATCCCAAAGAAATCTGTTGATTTAATG
AAAACAAGTTGTTCGTGA
>g1442.t1 Gene=g1442 Length=445
MIIFKIFTFINLSTLVFAEIYNFPNNFIWGAASASYQIEGAWNVDGKIPSIWDTASHKNN
SSIRDGSTGDDAGMSYYYYEKDIQALKDIGFEVYRFSIAWTRILTKANQVNQKGIDYYNK
VIDGLLDVGIQPLVTMYHWDLPQYLQDLGGWTNPAIVKYFEVYADTLFASFGDRVEEWIT
FNEPKTFCNGGYGEGWDAPEIKTVGNIGSYLCSHHVLLAHANVYHLYKNKYFTKQQGKVG
ICLDTTFSFPANENVTDELVDKAMHFSLGRYANPIYSADGDYPSVMREAIDQKSENEGRR
WSRLPHFTTAQIESLHGAADFLALNYYTSSLIQPYSHLGWNIADSDSEIHSFHDDSWKRS
ASSWLVSVPEDDGRVEYLREHLATMSRAITDGCRVEAYTVWSLTDNFEWMKGYTERFGIY
AINFTDPERPRIPKKSVDLMKTSCS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g1442.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 21 | 368 | 3.3E-128 |
| 13 | g1442.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 369 | 445 | 1.1E-26 |
| 3 | g1442.t1 | PANTHER | PTHR10353:SF36 | CYTOSOLIC BETA-GLUCOSIDASE | 17 | 369 | 1.3E-134 |
| 5 | g1442.t1 | PANTHER | PTHR10353 | GLYCOSYL HYDROLASE | 17 | 369 | 1.3E-134 |
| 4 | g1442.t1 | PANTHER | PTHR10353:SF36 | CYTOSOLIC BETA-GLUCOSIDASE | 370 | 440 | 1.3E-134 |
| 6 | g1442.t1 | PANTHER | PTHR10353 | GLYCOSYL HYDROLASE | 370 | 440 | 1.3E-134 |
| 10 | g1442.t1 | PRINTS | PR00131 | Glycosyl hydrolase family 1 signature | 318 | 332 | 4.0E-15 |
| 7 | g1442.t1 | PRINTS | PR00131 | Glycosyl hydrolase family 1 signature | 371 | 382 | 4.0E-15 |
| 8 | g1442.t1 | PRINTS | PR00131 | Glycosyl hydrolase family 1 signature | 392 | 409 | 4.0E-15 |
| 9 | g1442.t1 | PRINTS | PR00131 | Glycosyl hydrolase family 1 signature | 416 | 428 | 4.0E-15 |
| 2 | g1442.t1 | Pfam | PF00232 | Glycosyl hydrolase family 1 | 22 | 367 | 2.2E-100 |
| 1 | g1442.t1 | Pfam | PF00232 | Glycosyl hydrolase family 1 | 370 | 438 | 6.0E-22 |
| 16 | g1442.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 17 | g1442.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 1 | - |
| 18 | g1442.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 2 | 10 | - |
| 19 | g1442.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 11 | 18 | - |
| 15 | g1442.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 445 | - |
| 20 | g1442.t1 | ProSitePatterns | PS00653 | Glycosyl hydrolases family 1 N-terminal signature. | 27 | 41 | - |
| 11 | g1442.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 14 | 441 | 6.87E-128 |
| 12 | g1442.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
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