General information for g3676.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Myrosinase 1.
Parent gene
- The parent gene g3676 is located on chr_3: 27352328..27353667 (- 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 | g3676 | g3676.t1 | TTS | g3676.t1 | 27351836 | 27351836 |
| chr_3 | g3676 | g3676.t1 | isoform | g3676.t1 | 27352328 | 27353667 |
| chr_3 | g3676 | g3676.t1 | exon | g3676.t1.exon1 | 27352328 | 27353221 |
| chr_3 | g3676 | g3676.t1 | cds | g3676.t1.CDS1 | 27352328 | 27353221 |
| chr_3 | g3676 | g3676.t1 | exon | g3676.t1.exon2 | 27353269 | 27353667 |
| chr_3 | g3676 | g3676.t1 | cds | g3676.t1.CDS2 | 27353269 | 27353667 |
| chr_3 | g3676 | g3676.t1 | TSS | g3676.t1 | 27353694 | 27353694 |
Sequences
>g3676.t1 Gene=g3676 Length=1293
ATGAAGAAAATTTGGCTTTTTTCAATTATTGGCTTTGGATTAATTGCTACTGCAGCAATT
GCTACTTTAATAACTTTATATTTCTTAAGTGATGATGTGGAAGAATATGTTACATATGTT
ACATCAACTACAACTGAAACTACATCTTTCACATCAACTCAAACCACTACAGAAAAGAAT
GAAGATTTACTTGACTTCTCAACGGATTTTTCATTTGGAGCAGCTTCATCGAGTTATCAA
ATCGAAGGTGCTTATGATGTAGATGGTAAAACTCTCAACATTTGGGATACTCTCACACAT
AACATGCCTGAAAAAGTTTACAATGGAGATACAGGAGATGTTTCTGCCGATTCTTATCAT
AAATACAAAGATGACGTGAAAGCAATTAAAGATATTGGTTTCAATTTTTATAGATTTTCC
ATTTCATGGTCGAGAATTCTTCCGGATGGTGCAAAAACCAATCAAGCTGGCATCGATTAT
TATAACAATCTGATTAATGAACTTATAGCAAATGGAATAGAACCTATGGTCACAATGTAT
CACTGGGATTTGCCACAATATATTCAAGATATTGGTGGATGGACAAATGAGGTCATTCTA
GATTATTTCGATCATTATGCTGACGTTCTCTATGATAATTTTGGTGATCGAGTAAAGAAA
TGGATAACACTTAATGAACCATATATATTTTGTCATGATGGTTATGGAACAGGTCGTCAT
GCACCTGCAATTGAATCAAAAGGTGATGGAGAATATTTATGTGGTCATCATGCTTTACTC
GCACATGTGAGAGCTTATCACAATTACAAGAACAAATATCAAGCTACACAAAGAGGCGAA
GTTGGAATTTGTCTTTATAGTGCTAATTTTTATCCTTCTGAAAATGTTCATTTAACTTTA
GCAGAAACAGCATTACAACACATGCTTGGATGGTTTGCTAATCCGATTTTCAGTCAAAAT
GGAAATTATCCTCAAGTTATGATCGATAATATTAAGAGAAATAGTGAAAACGAAGGACGT
CCGTGGTCAAGACTTCCAGAATTTACATCAGAGCAGATAGCATCTCTTAAAGGTTCTTCC
GATTTTCTTGCTTTGAATTATTACACAAGCAGATTAGTTCAGCCAAAGGAAAACTATTCA
GAAGAGTATGGATGGGAAGATGACGCTGGCATTGATCAATCAATAGATCCAAGCTGGCCA
AAAGCAAAATCTGATTTTCTTTATAGTGTACCAGAAGGTTTACATGATTTACTTGTATGG
ATCAAAAATAAGACAATAATCCAAAAGTGTTGA
>g3676.t1 Gene=g3676 Length=430
MKKIWLFSIIGFGLIATAAIATLITLYFLSDDVEEYVTYVTSTTTETTSFTSTQTTTEKN
EDLLDFSTDFSFGAASSSYQIEGAYDVDGKTLNIWDTLTHNMPEKVYNGDTGDVSADSYH
KYKDDVKAIKDIGFNFYRFSISWSRILPDGAKTNQAGIDYYNNLINELIANGIEPMVTMY
HWDLPQYIQDIGGWTNEVILDYFDHYADVLYDNFGDRVKKWITLNEPYIFCHDGYGTGRH
APAIESKGDGEYLCGHHALLAHVRAYHNYKNKYQATQRGEVGICLYSANFYPSENVHLTL
AETALQHMLGWFANPIFSQNGNYPQVMIDNIKRNSENEGRPWSRLPEFTSEQIASLKGSS
DFLALNYYTSRLVQPKENYSEEYGWEDDAGIDQSIDPSWPKAKSDFLYSVPEGLHDLLVW
IKNKTIIQKC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g3676.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 64 | 428 | 3.6E-143 |
| 2 | g3676.t1 | PANTHER | PTHR10353:SF135 | - | 45 | 424 | 2.9E-125 |
| 3 | g3676.t1 | PANTHER | PTHR10353 | GLYCOSYL HYDROLASE | 45 | 424 | 2.9E-125 |
| 1 | g3676.t1 | Pfam | PF00232 | Glycosyl hydrolase family 1 | 66 | 424 | 2.7E-114 |
| 8 | g3676.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 6 | - |
| 10 | g3676.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
| 9 | g3676.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 30 | 430 | - |
| 6 | g3676.t1 | ProSitePatterns | PS00653 | Glycosyl hydrolases family 1 N-terminal signature. | 70 | 84 | - |
| 5 | g3676.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 63 | 424 | 1.28E-113 |
| 4 | g3676.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
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