Gene loci information

Transcript annotation

  • This transcript has been annotated as Alpha-N-acetylgalactosaminidase.

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 g4311 g4311.t2 isoform g4311.t2 1143563 1144392
chr_2 g4311 g4311.t2 exon g4311.t2.exon1 1143563 1143737
chr_2 g4311 g4311.t2 cds g4311.t2.CDS1 1143582 1143737
chr_2 g4311 g4311.t2 exon g4311.t2.exon2 1143795 1143968
chr_2 g4311 g4311.t2 cds g4311.t2.CDS2 1143795 1143968
chr_2 g4311 g4311.t2 exon g4311.t2.exon3 1144026 1144121
chr_2 g4311 g4311.t2 cds g4311.t2.CDS3 1144026 1144121
chr_2 g4311 g4311.t2 exon g4311.t2.exon4 1144228 1144392
chr_2 g4311 g4311.t2 cds g4311.t2.CDS4 1144228 1144392
chr_2 g4311 g4311.t2 TSS g4311.t2 NA NA
chr_2 g4311 g4311.t2 TTS g4311.t2 NA NA

Sequences

>g4311.t2 Gene=g4311 Length=610
TGAAAATCTATTTCGTACAATGGCAGATTTGGTTGTATCTGAAGGATATGCAGCAGTAGG
ATATGAATACATCAATGTGGATGATTGTTGGTTAGAAAAAAATCGTGGTCCTCGTGGTGA
ACTCGTTGCTGATAGAAAAAGATTCCCAAGTGGAATGCGTGCATTGGCAGATTATGTTCA
TGCGAAAGGTCTCAAATTTGGAATTTATGAGGATTATGGCAATTATACTTGCGCTGGCTA
CCCAGGAATTCTCGGTTCATCACGACAAGATGCTGAACAGTTTGCCTCTTGGGAAGTGGA
TTATGTCAAATTAGATGGCTGTTATTCACTTCCCACTGATATGGATGTTGGGTATCCCGA
GTTTGGAAGACATTTAAATAGAACAGGTCGACCAATGGTGTACAGCTGTAGCTGGCCTGT
GTATCAAATTTATGCTGGAATAAGTCCAAATTTCACTTCAATTATTGAGCATTGTAACTT
GTGGAGAAACTTTGATGACATTCAAGATTCATGGGCATCGCTCGAGAGTATCATTGATTA
CTATGGTAACAATCAGGACTACATCATTCCAAATGCTGGCCCAGGACATTTTAACGACGC
CGACATGCTT

>g4311.t2 Gene=g4311 Length=197
MADLVVSEGYAAVGYEYINVDDCWLEKNRGPRGELVADRKRFPSGMRALADYVHAKGLKF
GIYEDYGNYTCAGYPGILGSSRQDAEQFASWEVDYVKLDGCYSLPTDMDVGYPEFGRHLN
RTGRPMVYSCSWPVYQIYAGISPNFTSIIEHCNLWRNFDDIQDSWASLESIIDYYGNNQD
YIIPNAGPGHFNDADML

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g4311.t2 CDD cd14792 GH27 1 197 0
10 g4311.t2 Gene3D G3DSA:3.20.20.70 Aldolase class I 1 197 0
2 g4311.t2 PANTHER PTHR11452 ALPHA-GALACTOSIDASE/ALPHA-N-ACETYLGALACTOSAMINIDASE 1 197 0
3 g4311.t2 PANTHER PTHR11452:SF66 ALPHA-GALACTOSIDASE 1 197 0
7 g4311.t2 PRINTS PR00740 Glycosyl hydrolase family 27 signature 9 24 0
8 g4311.t2 PRINTS PR00740 Glycosyl hydrolase family 27 signature 50 71 0
4 g4311.t2 PRINTS PR00740 Glycosyl hydrolase family 27 signature 84 101 0
5 g4311.t2 PRINTS PR00740 Glycosyl hydrolase family 27 signature 111 129 0
6 g4311.t2 PRINTS PR00740 Glycosyl hydrolase family 27 signature 186 197 0
1 g4311.t2 Pfam PF16499 Alpha galactosidase A 1 197 0
9 g4311.t2 SUPERFAMILY SSF51445 (Trans)glycosidases 1 197 0

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
GO:0003824 catalytic activity MF

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