Gene loci information

Transcript annotation

  • This transcript has been annotated as Myrosinase 1.

Parent gene

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_2 g7467 g7467.t1 TSS g7467.t1 23893593 23893593
chr_2 g7467 g7467.t1 isoform g7467.t1 23893634 23896291
chr_2 g7467 g7467.t1 exon g7467.t1.exon1 23893634 23893781
chr_2 g7467 g7467.t1 cds g7467.t1.CDS1 23893634 23893781
chr_2 g7467 g7467.t1 exon g7467.t1.exon2 23893841 23893883
chr_2 g7467 g7467.t1 cds g7467.t1.CDS2 23893841 23893883
chr_2 g7467 g7467.t1 exon g7467.t1.exon3 23894002 23894060
chr_2 g7467 g7467.t1 cds g7467.t1.CDS3 23894002 23894060
chr_2 g7467 g7467.t1 exon g7467.t1.exon4 23894129 23894190
chr_2 g7467 g7467.t1 cds g7467.t1.CDS4 23894129 23894190
chr_2 g7467 g7467.t1 exon g7467.t1.exon5 23894271 23895109
chr_2 g7467 g7467.t1 cds g7467.t1.CDS5 23894271 23895109
chr_2 g7467 g7467.t1 exon g7467.t1.exon6 23895164 23895414
chr_2 g7467 g7467.t1 cds g7467.t1.CDS6 23895164 23895414
chr_2 g7467 g7467.t1 exon g7467.t1.exon7 23896119 23896291
chr_2 g7467 g7467.t1 cds g7467.t1.CDS7 23896119 23896291
chr_2 g7467 g7467.t1 TTS g7467.t1 23896676 23896676

Sequences

>g7467.t1 Gene=g7467 Length=1575
ATGAATATTCTTATCATTTTTTCTTTTTTATTTATTCCACGCATAAGTGCCGTATCTCGG
TCACCTATATTAATTGAAAAAGAATCTTTCGATTCCAGTTTTTATGCATTTCCAAAAAAT
TTCTCTTTTGGTGCGAGTACTGCGGCATATCAAATAGAAGGTGCATGGAATGAAGACGGC
AAAGGGCAAAGTATATGGGATACTTTCACACATAATCACCCTGACATGATTGCTGATGGT
ACGAATGGAGATATTGGAGACGACTCTTATCATCATTATTTGGACGATATAAAAGCACTA
AAAGAAGTTGGTTTTGAACATTACCGCTTTAGTGTTTCATGGGCACGAATTTTTCCAAAT
GGAACGATTGTTAACAAAAAAGGTTTTGATTATTATCATAAGCTGTTAGATCAATTAATT
GTGAATAATATCGAACCCGTTGTCACAATGCTTCATTATGATATTCCTCAATGGGTTCAA
GATTATGGTGGATTTTTGAATCCTTATTTCGTAAAATATTTCAAACTTTATGCACAAACT
TTATATACAGAATTTGGATCAAAAGTAAAAATTTGGATAACTTTTAATGAGCCTTATGAA
TCATGTGTTGAAGGCTATAGTGCAGGAACAAGTCCACCTCTCATAAATTTAAGAGGCACT
GGCGAATATATATGTGCTCACAATGTTCTTTTAGCTCATGCAGCTGCATATGACACTTAC
AAAAAACTTTTTAAAAACGATCAACGAGGAATGGTTGGAATAACTCTAGACAGTCGATTT
TATTTTCCAAAAAATCCTCTTGAAGGATCTGATATTGTTAATAGAGCAATGAACTTTGAA
CTTGGTTGGTTTGCACATCCAATTTTTTCTAAAAATGGTGACTATCCACAAGTAATGATA
GATGAAATAAATGAAAGAAGTAATCAGGAGGGTAGACCATTTTCACGACTTCCAGAAATG
TCAAATCAAGTAAAAGAATTTATTCGAGGCAGTGCAGATTTTCTTGGGTTCAATTATTAC
TCATCACGTTATGTTGAATTTGATAATTCTGAATATGATCCAACATCACAACCAACTATA
TATCAAGATTCAAGAATTAAAACATCAATTGATGAAAATTGGAAGCGAGCTAAGTCAGAA
TGGTTGTATAGTGTACCACAAGGACTTCATGATGCTTTAGTTTGGATTAAGAACGAATAT
AATAACATTCCAGTAATAATAACAGAAAATGGATGGAGTGATAGTGGTGAACTTGAAGAT
GATGATCGCATAAATTACTACAAAGAACACTTAATATCTGTTGCAAAAGCTATAAATATT
GAAAAATGTAATGTACTTGGATATACAGCGTGGTCAATCATTGATAATTTCGAATGGCGC
AAAGGATTCAGTGAAAGATTTGTGCAGGATGCGTTTTTGCAACTAAATCAATATAATGGT
TTGGATCATAAAAATGATATAGCAATAATTGAAATGCCATCATCATTTAATACAACCGAA
AAAAGTTATTTGAAATTTGCACGATTGCCGACAACAGAATTGAATGATGCACTTGTGGGA
TCAACAGTTGGTTAG

>g7467.t1 Gene=g7467 Length=524
MNILIIFSFLFIPRISAVSRSPILIEKESFDSSFYAFPKNFSFGASTAAYQIEGAWNEDG
KGQSIWDTFTHNHPDMIADGTNGDIGDDSYHHYLDDIKALKEVGFEHYRFSVSWARIFPN
GTIVNKKGFDYYHKLLDQLIVNNIEPVVTMLHYDIPQWVQDYGGFLNPYFVKYFKLYAQT
LYTEFGSKVKIWITFNEPYESCVEGYSAGTSPPLINLRGTGEYICAHNVLLAHAAAYDTY
KKLFKNDQRGMVGITLDSRFYFPKNPLEGSDIVNRAMNFELGWFAHPIFSKNGDYPQVMI
DEINERSNQEGRPFSRLPEMSNQVKEFIRGSADFLGFNYYSSRYVEFDNSEYDPTSQPTI
YQDSRIKTSIDENWKRAKSEWLYSVPQGLHDALVWIKNEYNNIPVIITENGWSDSGELED
DDRINYYKEHLISVAKAINIEKCNVLGYTAWSIIDNFEWRKGFSERFVQDAFLQLNQYNG
LDHKNDIAIIEMPSSFNTTEKSYLKFARLPTTELNDALVGSTVG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g7467.t1 Gene3D G3DSA:3.20.20.80 Glycosidases 35 469 4.7E-174
2 g7467.t1 PANTHER PTHR10353:SF36 CYTOSOLIC BETA-GLUCOSIDASE 35 467 6.8E-153
3 g7467.t1 PANTHER PTHR10353 GLYCOSYL HYDROLASE 35 467 6.8E-153
6 g7467.t1 PRINTS PR00131 Glycosyl hydrolase family 1 signature 331 345 1.7E-15
5 g7467.t1 PRINTS PR00131 Glycosyl hydrolase family 1 signature 405 413 1.7E-15
7 g7467.t1 PRINTS PR00131 Glycosyl hydrolase family 1 signature 420 431 1.7E-15
4 g7467.t1 PRINTS PR00131 Glycosyl hydrolase family 1 signature 442 459 1.7E-15
1 g7467.t1 Pfam PF00232 Glycosyl hydrolase family 1 36 467 1.3E-135
12 g7467.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
13 g7467.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
14 g7467.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 12 -
15 g7467.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 20 -
11 g7467.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 524 -
16 g7467.t1 ProSitePatterns PS00653 Glycosyl hydrolases family 1 N-terminal signature. 41 55 -
8 g7467.t1 SUPERFAMILY SSF51445 (Trans)glycosidases 36 467 5.64E-142
9 g7467.t1 SignalP_EUK SignalP-noTM SignalP-noTM 1 17 -

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

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.

Raw TPM values