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.t17 TSS g5991.t17 13210710 13210710
chr_2 g5991 g5991.t17 isoform g5991.t17 13211468 13213773
chr_2 g5991 g5991.t17 exon g5991.t17.exon1 13211468 13211605
chr_2 g5991 g5991.t17 cds g5991.t17.CDS1 13211513 13211605
chr_2 g5991 g5991.t17 exon g5991.t17.exon2 13211665 13211812
chr_2 g5991 g5991.t17 cds g5991.t17.CDS2 13211665 13211812
chr_2 g5991 g5991.t17 exon g5991.t17.exon3 13211876 13211971
chr_2 g5991 g5991.t17 cds g5991.t17.CDS3 13211876 13211971
chr_2 g5991 g5991.t17 exon g5991.t17.exon4 13212047 13212251
chr_2 g5991 g5991.t17 cds g5991.t17.CDS4 13212047 13212251
chr_2 g5991 g5991.t17 exon g5991.t17.exon5 13212334 13212469
chr_2 g5991 g5991.t17 cds g5991.t17.CDS5 13212334 13212469
chr_2 g5991 g5991.t17 exon g5991.t17.exon6 13212538 13212645
chr_2 g5991 g5991.t17 cds g5991.t17.CDS6 13212538 13212645
chr_2 g5991 g5991.t17 exon g5991.t17.exon7 13212893 13213174
chr_2 g5991 g5991.t17 cds g5991.t17.CDS7 13212893 13213174
chr_2 g5991 g5991.t17 exon g5991.t17.exon8 13213273 13213380
chr_2 g5991 g5991.t17 cds g5991.t17.CDS8 13213273 13213380
chr_2 g5991 g5991.t17 exon g5991.t17.exon9 13213499 13213533
chr_2 g5991 g5991.t17 cds g5991.t17.CDS9 13213499 13213533
chr_2 g5991 g5991.t17 exon g5991.t17.exon10 13213687 13213773
chr_2 g5991 g5991.t17 cds g5991.t17.CDS10 13213687 13213771
chr_2 g5991 g5991.t17 TTS g5991.t17 13214786 13214786

Sequences

>g5991.t17 Gene=g5991 Length=1343
CACAACATCATAATATTGTGGATGTGAATTGAGGGAATCGTAAAAATGCGAATTTTATTA
TTAGCTGTGATTTTAAATTGGAATCTACTGTCAATATGTGGCGATGAAGAAAATAAAGAC
TGGTGGCAAACGACTGTCTTTTATCAAATTTATCCAAGAAGTTTTCAAGATAGTAATGGT
GATGGAATTGGTGATTTAAAAGGAATCACTTCAAGATTAGATCATTTAAAAGAAGCAGGT
GTTGGTGCCACATGGCTAAGTCCAATTTTTAAATCTCCAATGGTTGACTTTGGCTATGAC
ATCTCAGACTATTTGAGCATTCAAGAAGAATATGGGACAATGGAGGATTTTGATGAGTTG
ATTGCAAAAGCAAAAGAATTAGGTATAAAAATAATTCTCGATTTTGTGCCCAATCATTCT
TCGGATAAGCACGAATGGTTCATCAAGTCAGAAGCGAAAGATCCCGAATATATTGACTTT
TATATATGGCACGATGGAAAGCCTAATCCTGATGGTGGTCGAAATCTTGAGCCAAATAAT
TGGGTTTCCGTTTTTTATGGCTCAGCATGGACTTGGAGTGATAAACGACAGCAATATTAT
TTGCATCAATTTACCAAACAGCAGCCAGATTTAAATTACCGCAATCCAAAAGTTGTCGAG
CGTATGAGTGACGTTTTGCGTTTTTGGCTAAAAAAAGGCGTTTATGGATTCCGCGTTGAT
GCTATTAATCACTTATTCGAAGTTGAGGATTTCATTGATGAGCCAGTGAATGCATTTGAT
CCTGATCCAAAATCTTATGGACACTTGTTTCATTATTATACCGTAGATTTGAATGAAGTA
TATGATGTCGTCTATCAATGGCGAGATCTCCTCGACGACTTTAAAAAGACGCACGGAGGC
GAAACAAGAATAATGATGACAGAGGCTTATGCAAATATGAGTTTCGTCATGAGATATTAT
GAAAATGATGAGGGCACTCGAAAAGGCTCTCATATACCATTCAACTTTCTTATGATTTCT
GATCTCAATGGCGACTCAACAGCACGAGATTTTGCACACACAATCAGCAAGTGGATGAAT
TATATGCCGGTTGGATTTACCGCTAATTGGGTTATGGGCAATCACGACAATTCACGTGTA
GCATCTCGCTATGGAGTCGAGCGTATTGATGCATTAAATACAATGCTGCTGACTCTCGGT
GGAGTTGGAATAACATATAATGGTGAAGAATTTGGAATGGTCGATTACAAGAACATCTCA
TGGAAAGACACACAAGATCCAGCAGCATGTAACACAAATCCAGATGTTTATCAAAAATAC
TCTAGAGATCCAGAACGAACACC

>g5991.t17 Gene=g5991 Length=432
MRILLLAVILNWNLLSICGDEENKDWWQTTVFYQIYPRSFQDSNGDGIGDLKGITSRLDH
LKEAGVGATWLSPIFKSPMVDFGYDISDYLSIQEEYGTMEDFDELIAKAKELGIKIILDF
VPNHSSDKHEWFIKSEAKDPEYIDFYIWHDGKPNPDGGRNLEPNNWVSVFYGSAWTWSDK
RQQYYLHQFTKQQPDLNYRNPKVVERMSDVLRFWLKKGVYGFRVDAINHLFEVEDFIDEP
VNAFDPDPKSYGHLFHYYTVDLNEVYDVVYQWRDLLDDFKKTHGGETRIMMTEAYANMSF
VMRYYENDEGTRKGSHIPFNFLMISDLNGDSTARDFAHTISKWMNYMPVGFTANWVMGNH
DNSRVASRYGVERIDALNTMLLTLGGVGITYNGEEFGMVDYKNISWKDTQDPAACNTNPD
VYQKYSRDPERT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g5991.t17 CDD cd11328 AmyAc_maltase 23 432 0.0
6 g5991.t17 Gene3D G3DSA:3.20.20.80 Glycosidases 26 432 1.7E-149
7 g5991.t17 Gene3D G3DSA:3.90.400.10 - 126 200 1.7E-149
2 g5991.t17 PANTHER PTHR10357 ALPHA-AMYLASE FAMILY MEMBER 20 432 4.0E-219
3 g5991.t17 PANTHER PTHR10357:SF177 FI17312P1-RELATED 20 432 4.0E-219
1 g5991.t17 Pfam PF00128 Alpha amylase, catalytic domain 49 402 9.9E-105
9 g5991.t17 Phobius SIGNAL_PEPTIDE Signal peptide region 1 16 -
10 g5991.t17 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
11 g5991.t17 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 10 -
12 g5991.t17 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 11 16 -
8 g5991.t17 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 17 432 -
14 g5991.t17 SMART SM00642 aamy 34 431 1.2E-140
4 g5991.t17 SUPERFAMILY SSF51445 (Trans)glycosidases 24 432 8.84E-113
5 g5991.t17 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.t17; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5991.t17.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