Gene loci information

Transcript annotation

  • This transcript has been annotated as Beta-1,3-glucan-binding protein.

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_3 g906 g906.t3 TTS g906.t3 6784076 6784076
chr_3 g906 g906.t3 isoform g906.t3 6784119 6789037
chr_3 g906 g906.t3 exon g906.t3.exon1 6784119 6784737
chr_3 g906 g906.t3 cds g906.t3.CDS1 6784119 6784737
chr_3 g906 g906.t3 exon g906.t3.exon2 6784818 6785126
chr_3 g906 g906.t3 cds g906.t3.CDS2 6784818 6785126
chr_3 g906 g906.t3 exon g906.t3.exon3 6788832 6789037
chr_3 g906 g906.t3 cds g906.t3.CDS3 6788832 6789037
chr_3 g906 g906.t3 TSS g906.t3 6789054 6789054

Sequences

>g906.t3 Gene=g906 Length=1134
ATGTGGTCGATTTTAACAGTTTTCCTTCTTGGCTCAGCCAATTTAATTCAAGCTCAACTT
TCTGAAACAACAGCAAGTGGAACACATGCACCGACAGGACCATTTAGACGTGGACAGTTG
ATTTTCGAAGAGAATTTCAATAATTTCAATTTAGATGTTTGGGAACACGAGCAAACACTT
GCTGGTGGTGGAAATTGGGAATTTCAGTACACCAACAATCGTTCAAACTCATACACTGAA
AATGGAATTCTTCATATTGCACCAACACTTGTAGCTGATGAATATGGTGAAAATTTCTTA
ACAACTGGTACGATAAGTCTTCATGGAGGTCAACCTGCTGATCAATGTACAAATCCAGCT
TATTGGGGTTGTGAAAGAACAGGAAATACAGTCAACATTCTCAATCCTGTCAAAAGTGCA
CGACTTCGTAGCATTCATTCATTTGCTTTTAAATATGGAATTGTCGAAGTTCGCGCAAAG
TTGCCTGCTGGTGATTGGTTATGGCCTGCTATTTGGTTGATGCCAAAGAAAAATTTCTAT
GGCTCTTGGCCATCAAGTGGAGAAATTGATTTAGTTGAAGGTCGCGGTAATCGCAATCTC
TTTAATGGAGAAAATGTAAATGTTGGTGTAGGTGAAGTTGGCAGCACACTTCATTATGGT
CCAGTTTGGAATTTAAATGGTTATCCATACGCAAATTTTTTAAAGCACTCAACAGTTGGC
TTCAATGAAGATTTTCACGTATATCGACTTGGGTGGACATCGAATGTTCTTGAATTTTCT
GTTGATAACGAAATAATTGGTTCAATTAATATCACAGCAGATGGAGATTTTTGGACGCGT
GGTCGATTTGATGAGCGTGAACCTGGTAGAGAAAATCCATGGAAAAGAAATTCTAAAATT
GCACCATTTGATCAAGAATTTTATATCATTATGAATTTGGCTGTTGGTGGAACTAATGGA
TATTTCCCTGATAATTTGAGAAATGAAGGAAGTGAAAAGCCATGGTTGAATACTTCACCA
CAAGCTTTGACTGATTTCTGGAATGGAAGAGAAGGTTGGCTTCCTACATGGAATTTAGGA
GTTGATGATAGTTCACATTTGCAAGTTGATTATGTTAGAATTTATGCCGTGTAA

>g906.t3 Gene=g906 Length=377
MWSILTVFLLGSANLIQAQLSETTASGTHAPTGPFRRGQLIFEENFNNFNLDVWEHEQTL
AGGGNWEFQYTNNRSNSYTENGILHIAPTLVADEYGENFLTTGTISLHGGQPADQCTNPA
YWGCERTGNTVNILNPVKSARLRSIHSFAFKYGIVEVRAKLPAGDWLWPAIWLMPKKNFY
GSWPSSGEIDLVEGRGNRNLFNGENVNVGVGEVGSTLHYGPVWNLNGYPYANFLKHSTVG
FNEDFHVYRLGWTSNVLEFSVDNEIIGSINITADGDFWTRGRFDEREPGRENPWKRNSKI
APFDQEFYIIMNLAVGGTNGYFPDNLRNEGSEKPWLNTSPQALTDFWNGREGWLPTWNLG
VDDSSHLQVDYVRIYAV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g906.t3 CDD cd08024 GH16_CCF 40 376 2.60123E-165
2 g906.t3 PANTHER PTHR10963:SF55 EXTRACELLULAR AGARASE 19 376 2.2E-87
3 g906.t3 PANTHER PTHR10963 GLYCOSYL HYDROLASE-RELATED 19 376 2.2E-87
1 g906.t3 Pfam PF00722 Glycosyl hydrolases family 16 137 269 3.9E-15
8 g906.t3 Phobius SIGNAL_PEPTIDE Signal peptide region 1 18 -
9 g906.t3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
10 g906.t3 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 13 -
11 g906.t3 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 18 -
7 g906.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 19 377 -
14 g906.t3 ProSiteProfiles PS51762 Glycosyl hydrolases family 16 (GH16) domain profile. 23 377 26.66
4 g906.t3 SUPERFAMILY SSF49899 Concanavalin A-like lectins/glucanases 33 376 7.32E-61
6 g906.t3 SignalP_EUK SignalP-noTM SignalP-noTM 1 18 -
13 g906.t3 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 18 -
5 g906.t3 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

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