Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t20 TSS g5991.t20 13210710 13210710
chr_2 g5991 g5991.t20 isoform g5991.t20 13211665 13215116
chr_2 g5991 g5991.t20 exon g5991.t20.exon1 13211665 13211812
chr_2 g5991 g5991.t20 cds g5991.t20.CDS1 13211806 13211812
chr_2 g5991 g5991.t20 exon g5991.t20.exon2 13211876 13211971
chr_2 g5991 g5991.t20 cds g5991.t20.CDS2 13211876 13211971
chr_2 g5991 g5991.t20 exon g5991.t20.exon3 13212047 13212251
chr_2 g5991 g5991.t20 cds g5991.t20.CDS3 13212047 13212251
chr_2 g5991 g5991.t20 exon g5991.t20.exon4 13212334 13212469
chr_2 g5991 g5991.t20 cds g5991.t20.CDS4 13212334 13212469
chr_2 g5991 g5991.t20 exon g5991.t20.exon5 13212538 13212645
chr_2 g5991 g5991.t20 cds g5991.t20.CDS5 13212538 13212645
chr_2 g5991 g5991.t20 exon g5991.t20.exon6 13212893 13213174
chr_2 g5991 g5991.t20 cds g5991.t20.CDS6 13212893 13213174
chr_2 g5991 g5991.t20 exon g5991.t20.exon7 13213273 13213384
chr_2 g5991 g5991.t20 cds g5991.t20.CDS7 13213273 13213384
chr_2 g5991 g5991.t20 exon g5991.t20.exon8 13213499 13213533
chr_2 g5991 g5991.t20 cds g5991.t20.CDS8 13213499 13213503
chr_2 g5991 g5991.t20 exon g5991.t20.exon9 13213687 13213780
chr_2 g5991 g5991.t20 exon g5991.t20.exon10 13213855 13214213
chr_2 g5991 g5991.t20 exon g5991.t20.exon11 13214889 13214969
chr_2 g5991 g5991.t20 exon g5991.t20.exon12 13215077 13215116
chr_2 g5991 g5991.t20 TTS g5991.t20 13215273 13215273

Sequences

>g5991.t20 Gene=g5991 Length=1696
TTTTATCAAATTTATCCAAGAAGTTTTCAAGATAGTAATGGTGATGGAATTGGTGATTTA
AAAGGAATCACTTCAAGATTAGATCATTTAAAAGAAGCAGGTGTTGGTGCCACATGGCTA
AGTCCAATTTTTAAATCTCCAATGGTTGACTTTGGCTATGACATCTCAGACTATTTGAGC
ATTCAAGAAGAATATGGGACAATGGAGGATTTTGATGAGTTGATTGCAAAAGCAAAAGAA
TTAGGTATAAAAATAATTCTCGATTTTGTGCCCAATCATTCTTCGGATAAGCACGAATGG
TTCATCAAGTCAGAAGCGAAAGATCCCGAATATATTGACTTTTATATATGGCACGATGGA
AAGCCTAATCCTGATGGTGGTCGAAATCTTGAGCCAAATAATTGGGTTTCCGTTTTTTAT
GGCTCAGCATGGACTTGGAGTGATAAACGACAGCAATATTATTTGCATCAATTTACCAAA
CAGCAGCCAGATTTAAATTACCGCAATCCAAAAGTTGTCGAGCGTATGAGTGACGTTTTG
CGTTTTTGGCTAAAAAAAGGCGTTTATGGATTCCGCGTTGATGCTATTAATCACTTATTC
GAAGTTGAGGATTTCATTGATGAGCCAGTGAATGCATTTGATCCTGATCCAAAATCTTAT
GGACACTTGTTTCATTATTATACCGTAGATTTGAATGAAGTATATGATGTCGTCTATCAA
TGGCGAGATCTCCTCGACGACTTTAAAAAGACGCACGGAGGCGAAACAAGAATAATGATG
ACAGAGGCTTATGCAAATATGAGTTTCGTCATGAGATATTATGAAAATGATGAGGGCACT
CGAAAAGGCTCTCATATACCATTCAACTTTCTTATGATTTCTGATCTCAATGGCGACTCA
ACAGCACGAGATTTTGCACACACAATCAGCAAGTGGATGAATTATATGCCGGTTGGATTT
ACCGCTAATTGGGTTATGGGCAATCACGACAATTCACGTGTAGCATCTCGCTATGGAGTC
GAGCGTATTGATGCATTAAATACAATGCTGCTGACTCTCGGTGGAGTTGGAATAACATAT
AATGTATGGTGAAGAATTTGGAATGGTCGATTACAAGAACATCTCATGGAAAGACACACA
AGATCCAGCAGCATGTAACACAAATCCAGATGTTTATCAAAAATACTCTAGAGATCCAGA
ACGAACACCCTTCCAGTGGGACAATACAAAAAATGCTGGATTTTCAACAGCAGACAAAAC
ATGGCTTCCTGTCAATCCCAATTATGTCGATCTTAATTTAAAAGCAGAAAAAGAAGCCGA
GCACAGTCATTTCAAGTTTTATCAAAAACTCACCAAATTACGTCAACATAAGACTTTTCA
AAATGGCAATATAAAAGTCCAGGCACTCAGCAAATATGTGTTTGCATTTGTTCGGGAATT
GCGTGATAGCGATACATTTGTTGTCGTAATTAATTTAGGAGCTAATGCAGAGGAAGTAAG
TCTAAAACCTTTCAAAACACTCCATGATAAACTAAAAGTTGTTGCTGCTGCTCCTACATC
ACAATATCATGAGGGCTCGATCGTATCAATAAATAGCGTTCCACTTGATTCATATGATTG
CGTCATATTTACTGATGGTGCTACGGAACATAATAGAGATTTTATAGATTATATGGTGAT
TACTGTAGGGAAGTGA

>g5991.t20 Gene=g5991 Length=316
MVDFGYDISDYLSIQEEYGTMEDFDELIAKAKELGIKIILDFVPNHSSDKHEWFIKSEAK
DPEYIDFYIWHDGKPNPDGGRNLEPNNWVSVFYGSAWTWSDKRQQYYLHQFTKQQPDLNY
RNPKVVERMSDVLRFWLKKGVYGFRVDAINHLFEVEDFIDEPVNAFDPDPKSYGHLFHYY
TVDLNEVYDVVYQWRDLLDDFKKTHGGETRIMMTEAYANMSFVMRYYENDEGTRKGSHIP
FNFLMISDLNGDSTARDFAHTISKWMNYMPVGFTANWVMGNHDNSRVASRYGVERIDALN
TMLLTLGGVGITYNVW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g5991.t20 Gene3D G3DSA:3.20.20.80 Glycosidases 1 52 0
8 g5991.t20 Gene3D G3DSA:3.90.400.10 - 53 119 0
6 g5991.t20 Gene3D G3DSA:3.20.20.80 Glycosidases 120 314 0
2 g5991.t20 PANTHER PTHR10357 ALPHA-AMYLASE FAMILY MEMBER 1 314 0
3 g5991.t20 PANTHER PTHR10357:SF177 FI17312P1-RELATED 1 314 0
1 g5991.t20 Pfam PF00128 Alpha amylase, catalytic domain 2 314 0
5 g5991.t20 SMART SM00642 aamy 2 314 0
4 g5991.t20 SUPERFAMILY SSF51445 (Trans)glycosidases 2 313 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5991/g5991.t20; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5991.t20.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.

Raw TPM values