General information for g906.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Beta-1,3-glucan-binding protein.
Parent gene
- The parent gene g906 is located on chr_3: 6784119..6789037 (- 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 | g906 | g906.t1 | TTS | g906.t1 | 6784076 | 6784076 |
| chr_3 | g906 | g906.t1 | isoform | g906.t1 | 6784119 | 6789037 |
| chr_3 | g906 | g906.t1 | exon | g906.t1.exon1 | 6784119 | 6784737 |
| chr_3 | g906 | g906.t1 | cds | g906.t1.CDS1 | 6784119 | 6784737 |
| chr_3 | g906 | g906.t1 | exon | g906.t1.exon2 | 6784818 | 6785126 |
| chr_3 | g906 | g906.t1 | cds | g906.t1.CDS2 | 6784818 | 6785126 |
| chr_3 | g906 | g906.t1 | exon | g906.t1.exon3 | 6788829 | 6789037 |
| chr_3 | g906 | g906.t1 | cds | g906.t1.CDS3 | 6788829 | 6789037 |
| chr_3 | g906 | g906.t1 | TSS | g906.t1 | 6789054 | 6789054 |
Sequences
>g906.t1 Gene=g906 Length=1137
ATGTGGTCGATTTTAACAGTTTTCCTTCTTGGCTCAGCCAATTTAATTCAAGCTCAACTT
TCTGAAACAACAGCAAGTGGAACACATGCACCGACAGGACCATTTAGACGTGGACAGTTG
ATTTTCGAAGAGAATTTCAATAATTTCAATTTAGATGTTTGGGAACACGAGCAAACACTT
GCTGGTGGTGGAAATTGGGAATTTCAGTGGTACACCAACAATCGTTCAAACTCATACACT
GAAAATGGAATTCTTCATATTGCACCAACACTTGTAGCTGATGAATATGGTGAAAATTTC
TTAACAACTGGTACGATAAGTCTTCATGGAGGTCAACCTGCTGATCAATGTACAAATCCA
GCTTATTGGGGTTGTGAAAGAACAGGAAATACAGTCAACATTCTCAATCCTGTCAAAAGT
GCACGACTTCGTAGCATTCATTCATTTGCTTTTAAATATGGAATTGTCGAAGTTCGCGCA
AAGTTGCCTGCTGGTGATTGGTTATGGCCTGCTATTTGGTTGATGCCAAAGAAAAATTTC
TATGGCTCTTGGCCATCAAGTGGAGAAATTGATTTAGTTGAAGGTCGCGGTAATCGCAAT
CTCTTTAATGGAGAAAATGTAAATGTTGGTGTAGGTGAAGTTGGCAGCACACTTCATTAT
GGTCCAGTTTGGAATTTAAATGGTTATCCATACGCAAATTTTTTAAAGCACTCAACAGTT
GGCTTCAATGAAGATTTTCACGTATATCGACTTGGGTGGACATCGAATGTTCTTGAATTT
TCTGTTGATAACGAAATAATTGGTTCAATTAATATCACAGCAGATGGAGATTTTTGGACG
CGTGGTCGATTTGATGAGCGTGAACCTGGTAGAGAAAATCCATGGAAAAGAAATTCTAAA
ATTGCACCATTTGATCAAGAATTTTATATCATTATGAATTTGGCTGTTGGTGGAACTAAT
GGATATTTCCCTGATAATTTGAGAAATGAAGGAAGTGAAAAGCCATGGTTGAATACTTCA
CCACAAGCTTTGACTGATTTCTGGAATGGAAGAGAAGGTTGGCTTCCTACATGGAATTTA
GGAGTTGATGATAGTTCACATTTGCAAGTTGATTATGTTAGAATTTATGCCGTGTAA
>g906.t1 Gene=g906 Length=378
MWSILTVFLLGSANLIQAQLSETTASGTHAPTGPFRRGQLIFEENFNNFNLDVWEHEQTL
AGGGNWEFQWYTNNRSNSYTENGILHIAPTLVADEYGENFLTTGTISLHGGQPADQCTNP
AYWGCERTGNTVNILNPVKSARLRSIHSFAFKYGIVEVRAKLPAGDWLWPAIWLMPKKNF
YGSWPSSGEIDLVEGRGNRNLFNGENVNVGVGEVGSTLHYGPVWNLNGYPYANFLKHSTV
GFNEDFHVYRLGWTSNVLEFSVDNEIIGSINITADGDFWTRGRFDEREPGRENPWKRNSK
IAPFDQEFYIIMNLAVGGTNGYFPDNLRNEGSEKPWLNTSPQALTDFWNGREGWLPTWNL
GVDDSSHLQVDYVRIYAV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g906.t1 | CDD | cd08024 | GH16_CCF | 40 | 377 | 1.41631E-167 |
| 2 | g906.t1 | PANTHER | PTHR10963:SF55 | EXTRACELLULAR AGARASE | 19 | 377 | 3.9E-90 |
| 3 | g906.t1 | PANTHER | PTHR10963 | GLYCOSYL HYDROLASE-RELATED | 19 | 377 | 3.9E-90 |
| 1 | g906.t1 | Pfam | PF00722 | Glycosyl hydrolases family 16 | 138 | 270 | 4.3E-15 |
| 8 | g906.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 9 | g906.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 10 | g906.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 13 | - |
| 11 | g906.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 7 | g906.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 378 | - |
| 14 | g906.t1 | ProSiteProfiles | PS51762 | Glycosyl hydrolases family 16 (GH16) domain profile. | 23 | 378 | 26.643 |
| 4 | g906.t1 | SUPERFAMILY | SSF49899 | Concanavalin A-like lectins/glucanases | 33 | 377 | 1.36E-63 |
| 6 | g906.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 13 | g906.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 5 | g906.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 20 | - |
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 K20697 (gram-negative bacteria-binding protein 1)
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