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.t19 TSS g5991.t19 13210710 13210710
chr_2 g5991 g5991.t19 isoform g5991.t19 13211513 13215116
chr_2 g5991 g5991.t19 exon g5991.t19.exon1 13211513 13211812
chr_2 g5991 g5991.t19 cds g5991.t19.CDS1 13211806 13211812
chr_2 g5991 g5991.t19 exon g5991.t19.exon2 13211876 13211971
chr_2 g5991 g5991.t19 cds g5991.t19.CDS2 13211876 13211971
chr_2 g5991 g5991.t19 exon g5991.t19.exon3 13212047 13212251
chr_2 g5991 g5991.t19 cds g5991.t19.CDS3 13212047 13212251
chr_2 g5991 g5991.t19 exon g5991.t19.exon4 13212334 13212469
chr_2 g5991 g5991.t19 cds g5991.t19.CDS4 13212334 13212469
chr_2 g5991 g5991.t19 exon g5991.t19.exon5 13212538 13212645
chr_2 g5991 g5991.t19 cds g5991.t19.CDS5 13212538 13212645
chr_2 g5991 g5991.t19 exon g5991.t19.exon6 13212893 13213174
chr_2 g5991 g5991.t19 cds g5991.t19.CDS6 13212893 13213174
chr_2 g5991 g5991.t19 exon g5991.t19.exon7 13213273 13213380
chr_2 g5991 g5991.t19 cds g5991.t19.CDS7 13213273 13213380
chr_2 g5991 g5991.t19 exon g5991.t19.exon8 13213499 13213533
chr_2 g5991 g5991.t19 cds g5991.t19.CDS8 13213499 13213533
chr_2 g5991 g5991.t19 exon g5991.t19.exon9 13213687 13213780
chr_2 g5991 g5991.t19 cds g5991.t19.CDS9 13213687 13213780
chr_2 g5991 g5991.t19 exon g5991.t19.exon10 13213855 13214213
chr_2 g5991 g5991.t19 cds g5991.t19.CDS10 13213855 13214213
chr_2 g5991 g5991.t19 exon g5991.t19.exon11 13214889 13214969
chr_2 g5991 g5991.t19 cds g5991.t19.CDS11 13214889 13214969
chr_2 g5991 g5991.t19 exon g5991.t19.exon12 13215077 13215116
chr_2 g5991 g5991.t19 cds g5991.t19.CDS12 13215077 13215116
chr_2 g5991 g5991.t19 TTS g5991.t19 13215273 13215273

Sequences

>g5991.t19 Gene=g5991 Length=1844
ATGCGAATTTTATTATTAGCTGTGATTTTAAATTGGAATCTACTGTCAATATGTGGCGAT
GAAGAAAATAAAGACTGGTGGCAAACGACTGTCGTAAGTTTTCATTTTATTTTTCATTCT
CATAAAATTTTTCATCTTTATTTTCTTGTCAGTTTTATCAAATTTATCCAAGAAGTTTTC
AAGATAGTAATGGTGATGGAATTGGTGATTTAAAAGGAATCACTTCAAGATTAGATCATT
TAAAAGAAGCAGGTGTTGGTGCCACATGGCTAAGTCCAATTTTTAAATCTCCAATGGTTG
ACTTTGGCTATGACATCTCAGACTATTTGAGCATTCAAGAAGAATATGGGACAATGGAGG
ATTTTGATGAGTTGATTGCAAAAGCAAAAGAATTAGGTATAAAAATAATTCTCGATTTTG
TGCCCAATCATTCTTCGGATAAGCACGAATGGTTCATCAAGTCAGAAGCGAAAGATCCCG
AATATATTGACTTTTATATATGGCACGATGGAAAGCCTAATCCTGATGGTGGTCGAAATC
TTGAGCCAAATAATTGGGTTTCCGTTTTTTATGGCTCAGCATGGACTTGGAGTGATAAAC
GACAGCAATATTATTTGCATCAATTTACCAAACAGCAGCCAGATTTAAATTACCGCAATC
CAAAAGTTGTCGAGCGTATGAGTGACGTTTTGCGTTTTTGGCTAAAAAAAGGCGTTTATG
GATTCCGCGTTGATGCTATTAATCACTTATTCGAAGTTGAGGATTTCATTGATGAGCCAG
TGAATGCATTTGATCCTGATCCAAAATCTTATGGACACTTGTTTCATTATTATACCGTAG
ATTTGAATGAAGTATATGATGTCGTCTATCAATGGCGAGATCTCCTCGACGACTTTAAAA
AGACGCACGGAGGCGAAACAAGAATAATGATGACAGAGGCTTATGCAAATATGAGTTTCG
TCATGAGATATTATGAAAATGATGAGGGCACTCGAAAAGGCTCTCATATACCATTCAACT
TTCTTATGATTTCTGATCTCAATGGCGACTCAACAGCACGAGATTTTGCACACACAATCA
GCAAGTGGATGAATTATATGCCGGTTGGATTTACCGCTAATTGGGTTATGGGCAATCACG
ACAATTCACGTGTAGCATCTCGCTATGGAGTCGAGCGTATTGATGCATTAAATACAATGC
TGCTGACTCTCGGTGGAGTTGGAATAACATATAATGGTGAAGAATTTGGAATGGTCGATT
ACAAGAACATCTCATGGAAAGACACACAAGATCCAGCAGCATGTAACACAAATCCAGATG
TTTATCAAAAATACTCTAGAGATCCAGAACGAACACCCTTCCAGTGGGACAATACAAAAA
ATGCTGGATTTTCAACAGCAGACAAAACATGGCTTCCTGTCAATCCCAATTATGTCGATC
TTAATTTAAAAGCAGAAAAAGAAGCCGAGCACAGTCATTTCAAGTTTTATCAAAAACTCA
CCAAATTACGTCAACATAAGACTTTTCAAAATGGCAATATAAAAGTCCAGGCACTCAGCA
AATATGTGTTTGCATTTGTTCGGGAATTGCGTGATAGCGATACATTTGTTGTCGTAATTA
ATTTAGGAGCTAATGCAGAGGAAGTAAGTCTAAAACCTTTCAAAACACTCCATGATAAAC
TAAAAGTTGTTGCTGCTGCTCCTACATCACAATATCATGAGGGCTCGATCGTATCAATAA
ATAGCGTTCCACTTGATTCATATGATTGCGTCATATTTACTGATGGTGCTACGGAACATA
ATAGAGATTTTATAGATTATATGGTGATTACTGTAGGGAAGTGA

>g5991.t19 Gene=g5991 Length=516
MVDFGYDISDYLSIQEEYGTMEDFDELIAKAKELGIKIILDFVPNHSSDKHEWFIKSEAK
DPEYIDFYIWHDGKPNPDGGRNLEPNNWVSVFYGSAWTWSDKRQQYYLHQFTKQQPDLNY
RNPKVVERMSDVLRFWLKKGVYGFRVDAINHLFEVEDFIDEPVNAFDPDPKSYGHLFHYY
TVDLNEVYDVVYQWRDLLDDFKKTHGGETRIMMTEAYANMSFVMRYYENDEGTRKGSHIP
FNFLMISDLNGDSTARDFAHTISKWMNYMPVGFTANWVMGNHDNSRVASRYGVERIDALN
TMLLTLGGVGITYNGEEFGMVDYKNISWKDTQDPAACNTNPDVYQKYSRDPERTPFQWDN
TKNAGFSTADKTWLPVNPNYVDLNLKAEKEAEHSHFKFYQKLTKLRQHKTFQNGNIKVQA
LSKYVFAFVRELRDSDTFVVVINLGANAEEVSLKPFKTLHDKLKVVAAAPTSQYHEGSIV
SINSVPLDSYDCVIFTDGATEHNRDFIDYMVITVGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g5991.t19 CDD cd11328 AmyAc_maltase 1 415 0
6 g5991.t19 Gene3D G3DSA:3.20.20.80 Glycosidases 1 407 0
7 g5991.t19 Gene3D G3DSA:3.90.400.10 - 48 122 0
2 g5991.t19 PANTHER PTHR10357 ALPHA-AMYLASE FAMILY MEMBER 1 501 0
3 g5991.t19 PANTHER PTHR10357:SF177 FI17312P1-RELATED 1 501 0
1 g5991.t19 Pfam PF00128 Alpha amylase, catalytic domain 2 324 0
5 g5991.t19 SMART SM00642 aamy 2 353 0
4 g5991.t19 SUPERFAMILY SSF51445 (Trans)glycosidases 2 407 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5991/g5991.t19; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5991.t19.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