Gene loci information

Transcript annotation

  • This transcript has been annotated as Maltase 1.

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 g5994 g5994.t5 TSS g5994.t5 13223384 13223384
chr_2 g5994 g5994.t5 isoform g5994.t5 13223983 13225119
chr_2 g5994 g5994.t5 exon g5994.t5.exon1 13223983 13224145
chr_2 g5994 g5994.t5 cds g5994.t5.CDS1 13224086 13224145
chr_2 g5994 g5994.t5 exon g5994.t5.exon2 13224216 13224323
chr_2 g5994 g5994.t5 cds g5994.t5.CDS2 13224216 13224323
chr_2 g5994 g5994.t5 exon g5994.t5.exon3 13224385 13224771
chr_2 g5994 g5994.t5 cds g5994.t5.CDS3 13224385 13224771
chr_2 g5994 g5994.t5 exon g5994.t5.exon4 13224830 13224895
chr_2 g5994 g5994.t5 cds g5994.t5.CDS4 13224830 13224895
chr_2 g5994 g5994.t5 exon g5994.t5.exon5 13224955 13225119
chr_2 g5994 g5994.t5 cds g5994.t5.CDS5 13224955 13225119
chr_2 g5994 g5994.t5 TTS g5994.t5 13225782 13225782

Sequences

>g5994.t5 Gene=g5994 Length=889
TCGTGCATGGTCATGGAACGAACAAAGACAGCAATATTATTTGCATCAATTTGCAAGTGG
TCAACCTGATTTGAATTTCCGAAATCCTCTTGTGGTTCAAGAAATGAAAAACGTTTTGAC
TTTTTGGCTCGAAAAGGGCGCAGACGGTTTTCGTATTGATGCGATAAACCACTTATTTGA
AGTTGAAGACTTTAGAGACGAACCAGAAACTGGCTGGACAAATAACACAAACGATTATGG
CTTTACTCACCATCATTACACTAAAGATTTGGATGAAACTTATGATATGGTTCGTGAATG
GAGAAAATTAATTGATGATTTTAATGCCGCACATCCAGGAAATACAAGAGTAATTTTCAC
AGAAGCTTATGCAAATGTATCATTCACAATGAAATACTATGGTTCAGAAGCTGAACCTAT
TGCACACTTTCCTTTCAACTTTCTACTTATTGAAAAATTAAATGAAGGCTCGAATGCAAA
TGATTTTAAAAGAGAAATTGATGAATGGTTCACAAATTTGCCAAATGCTCATGCGACATC
AAACTGGGTTCTTGGAAATCATGACAAACCAAGATTTGCTTCACGTTATGGAACTGAAAG
AGTTGATGGAATGTTGATGCTTTTGCTACTTCTTCCCGGAGTTGCAGTAACCTATATGGG
AGACGAAATTGGAATGGTTGATTTCCGTGATGGAATTTCTTGGGAAGAGACTCTTGATCC
ACAAGCTTGCAACACAAGTCCAGAAGATTACAAATGGGCATCAAGAGATCCAGTAAGAAC
GCCTTTCCAGTGGGACGCATCATATGCAGCTGGATTTTGTGCATCATGTAATAAAACATG
GTTGCCACTCAATGACAATTACCAGACGTTAAATTTGGCAAATCAAAGA

>g5994.t5 Gene=g5994 Length=262
MKNVLTFWLEKGADGFRIDAINHLFEVEDFRDEPETGWTNNTNDYGFTHHHYTKDLDETY
DMVREWRKLIDDFNAAHPGNTRVIFTEAYANVSFTMKYYGSEAEPIAHFPFNFLLIEKLN
EGSNANDFKREIDEWFTNLPNAHATSNWVLGNHDKPRFASRYGTERVDGMLMLLLLLPGV
AVTYMGDEIGMVDFRDGISWEETLDPQACNTSPEDYKWASRDPVRTPFQWDASYAAGFCA
SCNKTWLPLNDNYQTLNLANQR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g5994.t5 Gene3D G3DSA:3.20.20.80 Glycosidases 1 262 0.00000
2 g5994.t5 PANTHER PTHR10357 ALPHA-AMYLASE FAMILY MEMBER 1 262 0.00000
3 g5994.t5 PANTHER PTHR10357:SF177 FI17312P1-RELATED 1 262 0.00000
1 g5994.t5 Pfam PF00128 Alpha amylase, catalytic domain 1 195 0.00000
5 g5994.t5 SMART SM00642 aamy 1 225 0.00025
4 g5994.t5 SUPERFAMILY SSF51445 (Trans)glycosidases 1 261 0.00000

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5994/g5994.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5994.t5.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