Gene loci information

Transcript annotation

  • This transcript has been annotated as Beta-hexosaminidase subunit beta.

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_4 g15688 g15688.t4 isoform g15688.t4 6397262 6399074
chr_4 g15688 g15688.t4 exon g15688.t4.exon1 6397262 6397574
chr_4 g15688 g15688.t4 cds g15688.t4.CDS1 6397263 6397574
chr_4 g15688 g15688.t4 exon g15688.t4.exon2 6398452 6398567
chr_4 g15688 g15688.t4 cds g15688.t4.CDS2 6398452 6398567
chr_4 g15688 g15688.t4 exon g15688.t4.exon3 6398633 6399074
chr_4 g15688 g15688.t4 cds g15688.t4.CDS3 6398633 6399074
chr_4 g15688 g15688.t4 TSS g15688.t4 6399129 6399129
chr_4 g15688 g15688.t4 TTS g15688.t4 NA NA

Sequences

>g15688.t4 Gene=g15688 Length=871
ATGCACAAAATTTTAATTTTTCTCACATTTTCTGTGACTCTTGCAACTTCCTATATTGTT
GATTATGGGCCAGTCGTGAAAGCAAGTCAAGGTAAAAAAATTTCATGCATCAGTGAAAAT
TTTCTAATCAAAACTCTTCTCACAGGTGCTATTTGGCCAAAACCAAAAACTCAGGTAATA
AGTAACAATTTCAACATGCTTCGTCCATCAGAATTTACATTTGAAACTGTCGGTAATTCA
TGTGATATTTTACAAAATGCATTGGAACGCTATCACACTATAATTGTGACACATTTAAGA
CGAATAAGAAATCGGGTAAAAAACGATCATGAAAATAATAAATGGAGAAGTAAACCCGAA
TATAGTGGACGATTGACGAGCGTAAAAGTGAACTTGAAACAAAAATGCGAAAAAATGCCG
CACGTTGATATGGATGAATCATATGATCTTAATATTGCTGAACAACAAGCAACAATTGAA
TCAAATTCAATATGGGGATTATTAAGAGGACTTGAATCATTTTCTCAACTACTTTATCAT
TCACCTGATGCGAAATTTCTTCTAATCAATGATACAAATATTTATGATGAACCACGCTTC
AAACATCGAGGACTTTTAGTAGACACCAGCAGACATTTCATAAGCATTGCAATTTTAAAA
GAAATTCTTGATGGAATGGCTTACAATAAACTTAATGTTTTTCATTGGCACATTGTTGAT
GATCATAGTTTTCCATATCAAAGCATAAAATATCCTGAATTAACTCGTGGTGCTTATCAT
GAAAGTATGATTTATTCACAACAAGATATTGCTGATATAATTGAATATGCAAGAATGAGA
GGAATTCGAGTTATGAGTGAATTCGACACAC

>g15688.t4 Gene=g15688 Length=290
MHKILIFLTFSVTLATSYIVDYGPVVKASQGKKISCISENFLIKTLLTGAIWPKPKTQVI
SNNFNMLRPSEFTFETVGNSCDILQNALERYHTIIVTHLRRIRNRVKNDHENNKWRSKPE
YSGRLTSVKVNLKQKCEKMPHVDMDESYDLNIAEQQATIESNSIWGLLRGLESFSQLLYH
SPDAKFLLINDTNIYDEPRFKHRGLLVDTSRHFISIAILKEILDGMAYNKLNVFHWHIVD
DHSFPYQSIKYPELTRGAYHESMIYSQQDIADIIEYARMRGIRVMSEFDT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g15688.t4 Gene3D G3DSA:3.30.379.10 Chitobiase 51 196 3.1E-40
13 g15688.t4 Gene3D G3DSA:3.20.20.80 Glycosidases 198 290 6.0E-42
3 g15688.t4 PANTHER PTHR22600 BETA-HEXOSAMINIDASE 38 290 2.9E-70
4 g15688.t4 PANTHER PTHR22600:SF47 BETA-HEXOSAMINIDASE A 38 290 2.9E-70
5 g15688.t4 PRINTS PR00738 Glycosyl hydrolase family 20 signature 157 177 1.7E-33
8 g15688.t4 PRINTS PR00738 Glycosyl hydrolase family 20 signature 194 211 1.7E-33
7 g15688.t4 PRINTS PR00738 Glycosyl hydrolase family 20 signature 223 244 1.7E-33
6 g15688.t4 PRINTS PR00738 Glycosyl hydrolase family 20 signature 276 290 1.7E-33
1 g15688.t4 Pfam PF14845 beta-acetyl hexosaminidase like 51 177 1.2E-21
2 g15688.t4 Pfam PF00728 Glycosyl hydrolase family 20, catalytic domain 200 290 1.1E-33
15 g15688.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
16 g15688.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
17 g15688.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 12 -
18 g15688.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 17 -
14 g15688.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 290 -
9 g15688.t4 SUPERFAMILY SSF55545 beta-N-acetylhexosaminidase-like domain 51 199 4.19E-28
10 g15688.t4 SUPERFAMILY SSF51445 (Trans)glycosidases 200 290 7.37E-37
11 g15688.t4 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:0004563 beta-N-acetylhexosaminidase activity MF
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.

Raw TPM values