Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Maltase 2.

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 g5991 g5991.t15 TSS g5991.t15 13210710 13210710
chr_2 g5991 g5991.t15 isoform g5991.t15 13210759 13211984
chr_2 g5991 g5991.t15 exon g5991.t15.exon1 13210759 13210828
chr_2 g5991 g5991.t15 exon g5991.t15.exon2 13211468 13211605
chr_2 g5991 g5991.t15 cds g5991.t15.CDS1 13211513 13211605
chr_2 g5991 g5991.t15 exon g5991.t15.exon3 13211665 13211812
chr_2 g5991 g5991.t15 cds g5991.t15.CDS2 13211665 13211812
chr_2 g5991 g5991.t15 exon g5991.t15.exon4 13211876 13211984
chr_2 g5991 g5991.t15 cds g5991.t15.CDS3 13211876 13211982
chr_2 g5991 g5991.t15 TTS g5991.t15 NA NA

Sequences

>g5991.t15 Gene=g5991 Length=465
ATTTTAAAAATAAATTTTTGTTTGTTCGGCATTTAAACTTATACAAGATCTTTTTTAATA
AGGAATAAAACACAACATCATAATATTGTGGATGTGAATTGAGGGAATCGTAAAAATGCG
AATTTTATTATTAGCTGTGATTTTAAATTGGAATCTACTGTCAATATGTGGCGATGAAGA
AAATAAAGACTGGTGGCAAACGACTGTCTTTTATCAAATTTATCCAAGAAGTTTTCAAGA
TAGTAATGGTGATGGAATTGGTGATTTAAAAGGAATCACTTCAAGATTAGATCATTTAAA
AGAAGCAGGTGTTGGTGCCACATGGCTAAGTCCAATTTTTAAATCTCCAATGGTTGACTT
TGGCTATGACATCTCAGACTATTTGAGCATTCAAGAAGAATATGGGACAATGGAGGATTT
TGATGAGTTGATTGCAAAAGCAAAAGAATTAGGTAAAAGAATTTT

>g5991.t15 Gene=g5991 Length=116
MRILLLAVILNWNLLSICGDEENKDWWQTTVFYQIYPRSFQDSNGDGIGDLKGITSRLDH
LKEAGVGATWLSPIFKSPMVDFGYDISDYLSIQEEYGTMEDFDELIAKAKELGKRI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g5991.t15 Gene3D G3DSA:3.20.20.80 Glycosidases 25 115 6.4E-51
2 g5991.t15 PANTHER PTHR10357 ALPHA-AMYLASE FAMILY MEMBER 19 116 1.2E-49
3 g5991.t15 PANTHER PTHR10357:SF177 FI17312P1-RELATED 19 116 1.2E-49
1 g5991.t15 Pfam PF00128 Alpha amylase, catalytic domain 49 114 4.3E-28
8 g5991.t15 Phobius SIGNAL_PEPTIDE Signal peptide region 1 16 -
9 g5991.t15 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
10 g5991.t15 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 10 -
11 g5991.t15 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 11 16 -
7 g5991.t15 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 17 116 -
4 g5991.t15 SUPERFAMILY SSF51445 (Trans)glycosidases 24 113 1.4E-40
5 g5991.t15 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5991/g5991.t15; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5991.t15.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
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