General information for g1443.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Myrosinase 1.
Parent gene
- The parent gene g1443 is located on chr_3: 10997776..10999473 (- 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 | g1443 | g1443.t1 | isoform | g1443.t1 | 10997776 | 10999473 |
| chr_3 | g1443 | g1443.t1 | exon | g1443.t1.exon1 | 10997776 | 10998438 |
| chr_3 | g1443 | g1443.t1 | cds | g1443.t1.CDS1 | 10997776 | 10998438 |
| chr_3 | g1443 | g1443.t1 | exon | g1443.t1.exon2 | 10998497 | 10998890 |
| chr_3 | g1443 | g1443.t1 | cds | g1443.t1.CDS2 | 10998497 | 10998890 |
| chr_3 | g1443 | g1443.t1 | exon | g1443.t1.exon3 | 10998953 | 10999089 |
| chr_3 | g1443 | g1443.t1 | cds | g1443.t1.CDS3 | 10998953 | 10999089 |
| chr_3 | g1443 | g1443.t1 | exon | g1443.t1.exon4 | 10999139 | 10999308 |
| chr_3 | g1443 | g1443.t1 | cds | g1443.t1.CDS4 | 10999139 | 10999308 |
| chr_3 | g1443 | g1443.t1 | exon | g1443.t1.exon5 | 10999371 | 10999473 |
| chr_3 | g1443 | g1443.t1 | cds | g1443.t1.CDS5 | 10999371 | 10999473 |
| chr_3 | g1443 | g1443.t1 | TSS | g1443.t1 | NA | NA |
| chr_3 | g1443 | g1443.t1 | TTS | g1443.t1 | NA | NA |
Sequences
>g1443.t1 Gene=g1443 Length=1467
ATGAAGTTATTTTTAAAACTTTTGACTCTTTCTAGTTTAAATTTTGCTATTTTTGCTGAA
ATTTATAATTTTCCTAGTAATTTTGTTTGGGGTGCTGCTTCAGCAAGTTATCAAATCGAA
GGAGCATGGAATGTAGATGGAAGAATTCCTAGTATTTGGGACACAGCATCACATAAAAAT
AATTCAAGTGTTGTTGATGGATCAACTGGTGATGATGCAGCAATGTCTTATTATTATTAT
GAAAAAGATATTCAAGCATTAAAAGATATCGGATTTAAAACGTATCGATTTTCAATTGCT
TGGCCAAGAGTATTGACAAAAACAAACCAAGTTAATCAAGCTGGAATTGATTATTATAGT
AAATTAATTGATCGATTGAAAGAAGAAGAAATTAAACCAATGGTCACAATGTATCATTGG
GACTTACCTCAATATCTTCAAGATTTAGGAGGTTGGACAAATCCAGCTATTGTAAAATAT
TTTGAACATTATGCAGACACACTTTATAAACATTTTGGAGATCGTGTAAAAGAATGGATA
ACTTTTAATGAACCAGCAACATTTTGTGATGGCGGTTACTCTTGGGGATGGCATGCTCCT
GAAATTCGAACTGAAAAACAAATCGGTGGTTATTTGTGTTCTCATCATATTCTTCTAGCA
CATGGTGCAGCTTATCATTTATATAAGAACAAATATTTTGCTGATCAACAAGGAAAAGTT
GGAATTTGTCTCAATACTGGCTACAGCTTTCCTGCAAATGAAAATGTAACCGATGAACAT
GTTGATAGAGCAATGCATTTTGGTCTTGGTCGTTATGCAAATCCAATTTATTCAGTTGAC
GGTGATTATCCAAGAGTTATGCGTGAAGCAATTGATCAGAAGAGTACAGATGAAGGCAGA
AGATGGTCAAGACTTCCACATTTTACAACAGCTCAAGTAGAAAGCCTTCATGGTGCTGCT
GACTTTTTAGCTTTGAATTATTACACAAGTAGTCTTATTCAACCTTATTCACATCTTGGT
TGGAATCCAGCTGATAGCGATAGTGAAATTCATTCATTTCATGATGACAATTGGAAAAGA
AGTTCGAGTTCGTGGTTAGTGTCAGTTCCTGAAGGTTTATATCATCTATTACTTTGGATA
AAAGATAATTACAACAATCCATTAGTTTATATTACTGAAAATGGTTGGTCAGATTTACCA
ATGACAATTGAAGATGATGGTCGTGTTGAATATTTAAGAGAACATCTTGCTGCAATGTCT
CGAGCAATTACTGATGGTTGTAGAGTAGAAACTTACACAGTTTGGAGTTTAACAGATAAT
TTTGAATGGATGAGAGGTTACACTGAAAGATTTGGAATTTATGCAATTAATTTTACTGAT
CCTGAAAGAAAAAGAATTCCAAAGAATTCAGTTGATTTAATGAAACAAGTTGTTCGTGAC
AATTTTGTTGAAGTTGAAAAAGATTAA
>g1443.t1 Gene=g1443 Length=488
MKLFLKLLTLSSLNFAIFAEIYNFPSNFVWGAASASYQIEGAWNVDGRIPSIWDTASHKN
NSSVVDGSTGDDAAMSYYYYEKDIQALKDIGFKTYRFSIAWPRVLTKTNQVNQAGIDYYS
KLIDRLKEEEIKPMVTMYHWDLPQYLQDLGGWTNPAIVKYFEHYADTLYKHFGDRVKEWI
TFNEPATFCDGGYSWGWHAPEIRTEKQIGGYLCSHHILLAHGAAYHLYKNKYFADQQGKV
GICLNTGYSFPANENVTDEHVDRAMHFGLGRYANPIYSVDGDYPRVMREAIDQKSTDEGR
RWSRLPHFTTAQVESLHGAADFLALNYYTSSLIQPYSHLGWNPADSDSEIHSFHDDNWKR
SSSSWLVSVPEGLYHLLLWIKDNYNNPLVYITENGWSDLPMTIEDDGRVEYLREHLAAMS
RAITDGCRVETYTVWSLTDNFEWMRGYTERFGIYAINFTDPERKRIPKNSVDLMKQVVRD
NFVEVEKD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g1443.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 22 | 488 | 1.6E-178 |
| 2 | g1443.t1 | PANTHER | PTHR10353:SF36 | CYTOSOLIC BETA-GLUCOSIDASE | 22 | 482 | 1.3E-155 |
| 3 | g1443.t1 | PANTHER | PTHR10353 | GLYCOSYL HYDROLASE | 22 | 482 | 1.3E-155 |
| 7 | g1443.t1 | PRINTS | PR00131 | Glycosyl hydrolase family 1 signature | 319 | 333 | 1.3E-18 |
| 6 | g1443.t1 | PRINTS | PR00131 | Glycosyl hydrolase family 1 signature | 389 | 397 | 1.3E-18 |
| 5 | g1443.t1 | PRINTS | PR00131 | Glycosyl hydrolase family 1 signature | 405 | 416 | 1.3E-18 |
| 4 | g1443.t1 | PRINTS | PR00131 | Glycosyl hydrolase family 1 signature | 426 | 443 | 1.3E-18 |
| 8 | g1443.t1 | PRINTS | PR00131 | Glycosyl hydrolase family 1 signature | 450 | 462 | 1.3E-18 |
| 1 | g1443.t1 | Pfam | PF00232 | Glycosyl hydrolase family 1 | 23 | 481 | 4.3E-144 |
| 14 | g1443.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 15 | g1443.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 16 | g1443.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 13 | - |
| 17 | g1443.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 13 | g1443.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 488 | - |
| 19 | g1443.t1 | ProSitePatterns | PS00653 | Glycosyl hydrolases family 1 N-terminal signature. | 28 | 42 | - |
| 9 | g1443.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 18 | 479 | 7.46E-146 |
| 11 | g1443.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 18 | g1443.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 10 | g1443.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 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 transcript has been annotated with K05350 (beta-glucosidase)
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