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_4 g17009 g17009.t1 TTS g17009.t1 12140671 12140671
chr_4 g17009 g17009.t1 isoform g17009.t1 12140905 12143185
chr_4 g17009 g17009.t1 exon g17009.t1.exon1 12140905 12141669
chr_4 g17009 g17009.t1 cds g17009.t1.CDS1 12140905 12141669
chr_4 g17009 g17009.t1 exon g17009.t1.exon2 12141724 12141928
chr_4 g17009 g17009.t1 cds g17009.t1.CDS2 12141724 12141928
chr_4 g17009 g17009.t1 exon g17009.t1.exon3 12142317 12143185
chr_4 g17009 g17009.t1 cds g17009.t1.CDS3 12142317 12143185
chr_4 g17009 g17009.t1 TSS g17009.t1 12143221 12143221

Sequences

>g17009.t1 Gene=g17009 Length=1839
ATGCTTAAGCTTTTCACATTTTTGGTTTTAGTTCATTTTACTTTCTCAGCCAATTTAGAT
TGGTACAAGACAGCAAGTTTCTATCAAATTTATCCTCAAACATTTTATGATGGTGGTGGT
GGTGATCGTGAAGGTTTTGGAACATTTAAAGGAATCCAACAAAAAATTCCATATCTCAAA
GAACTTGGAATTGATTGCATATGGTTGACTCCAATTTTTAAGACAGCTTATAGATCTTTT
GGTTATGACATCACTGACTATGAAGATATAGAAACTCGATATGGCACAAAACAAGATTTC
AAAAATCTTATCGATGAAATTCACAATAATAATATGAAAATTATTGTTGACTTTGTGCCA
AATCATTGCAGTTTTGAACATGAATTTTTTAAAAAGTCAATGGAAAAGGATTCAGTTTAT
GATAAATGGTTTGTTTGGTTAGAAGGAAAAGGTGAAAATAAAACTTTACCACCATCTAAT
TGGCAACGAATTGGTGGTGGTCTTTCAACAGCATGGAATCGTCATATTAATGGCCAAGAA
ATAAATCGTACTGAATTTTTCTATGCACAATTCAGTGCGACTATGCCTGATTTGAATTTA
CGAAATGAACAAGTCAAAGAATATTGGAAAAAGTTTCTTAAAATGTGGCTTGAATTTGGT
CTTGATGGATTTAGAATTGATGCAATTTCTCATGGTATTGAATATTTCAACGCTGATGGA
ACAGCACCTGATGAAGCAATAGTTGAAGGAATTGAAAATGAAAACGATTTTAATTACTTA
AACCACACCTACACTCAAGATCAACCTGAATTATTTGAACTGGTTTATGATTGGCGTGAA
GTACTTGACACATTCAATGACAGTGCAAGAATTTTCATGACAGAAAGTTATTCGAAACCT
GAAACAATTATGAAATTTTATCGTAATGAAAATTCTACACGAAAAGGAGCTCATTTGCCA
TTTAATTTTCAATTAATTCAGAAAATTAAGAAAAATTCAACAGCTGAAACTTTTGTCAAT
ACAATTAATGAATGGTTTAGATTACTTCCTGAAGGAGAAGTCACAAATTGGGCGATTGGA
AACCATGATCAATCACGTGTTGCAACAAAATATGGAACTGAAAGAATCGACATTTTTAAT
TTTCTTTGTACAATGTTGCCTGGTACAAGTGTAACTTATTATGGAGAAGAAATTGGCATG
CAAGACTCGTGTGTTTATTATGATGCTGATACCAATAATCCAGGACATCGATGCAATGAA
ACTCACAGACCACTTTCGGATGCACCTTTTAGAACTCCTATGCAATGGACAAATGGAACC
AATGGTGGATTCACAAATTCAAGCAAACCATGGCTGCCTATTGGAGATGATTATTTGACA
GTGAATGTTGCAGCACAACAAGGAGTTAAAGGCAGTCATTTGGAAATTTATAAATCATTA
ATTGCTCTCAGAAAACACAAAGCTGTTAAAGAAGGAACACTTGATGGATTCAAAATTGTT
AAATTAAGTGATTTTGCATTTGGTTTCAAACGAGAATTGAAGAATATCAAAGATGAAAGC
TTGTTAATTCTGATTAATTATGGAAATGACGCTGTAAAAGTAAATTTAACAAATCTTGAA
TTATATGATGAGCCAAATTCAGTAGTTTATAAAATAATTGGAAATTCAAAGGCTGAAGCA
CAAAATAATGTTGGGAAAAGTATTGAAATTGGTGAAGGAATTTCAATTGAAGGCAATGAA
GCTCTTGTTTTAGGATACAATAATGCAAATGCAATTTATTTGAAATTTACTGTTATCTTC
TTGGGAATAATTTTGTTTGCAATAGGAAAAATTTTGTAA

>g17009.t1 Gene=g17009 Length=612
MLKLFTFLVLVHFTFSANLDWYKTASFYQIYPQTFYDGGGGDREGFGTFKGIQQKIPYLK
ELGIDCIWLTPIFKTAYRSFGYDITDYEDIETRYGTKQDFKNLIDEIHNNNMKIIVDFVP
NHCSFEHEFFKKSMEKDSVYDKWFVWLEGKGENKTLPPSNWQRIGGGLSTAWNRHINGQE
INRTEFFYAQFSATMPDLNLRNEQVKEYWKKFLKMWLEFGLDGFRIDAISHGIEYFNADG
TAPDEAIVEGIENENDFNYLNHTYTQDQPELFELVYDWREVLDTFNDSARIFMTESYSKP
ETIMKFYRNENSTRKGAHLPFNFQLIQKIKKNSTAETFVNTINEWFRLLPEGEVTNWAIG
NHDQSRVATKYGTERIDIFNFLCTMLPGTSVTYYGEEIGMQDSCVYYDADTNNPGHRCNE
THRPLSDAPFRTPMQWTNGTNGGFTNSSKPWLPIGDDYLTVNVAAQQGVKGSHLEIYKSL
IALRKHKAVKEGTLDGFKIVKLSDFAFGFKRELKNIKDESLLILINYGNDAVKVNLTNLE
LYDEPNSVVYKIIGNSKAEAQNNVGKSIEIGEGISIEGNEALVLGYNNANAIYLKFTVIF
LGIILFAIGKIL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g17009.t1 Gene3D G3DSA:3.20.20.80 Glycosidases 21 485 8.2E-133
7 g17009.t1 Gene3D G3DSA:3.90.400.10 - 124 202 8.2E-133
2 g17009.t1 PANTHER PTHR10357:SF207 LP11544P-RELATED 16 585 6.4E-164
3 g17009.t1 PANTHER PTHR10357 ALPHA-AMYLASE FAMILY MEMBER 16 585 6.4E-164
1 g17009.t1 Pfam PF00128 Alpha amylase, catalytic domain 47 403 1.3E-82
10 g17009.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 16 -
11 g17009.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
12 g17009.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 11 -
14 g17009.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 16 -
9 g17009.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 17 591 -
13 g17009.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 592 609 -
8 g17009.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 610 612 -
16 g17009.t1 SMART SM00642 aamy 29 431 6.2E-94
4 g17009.t1 SUPERFAMILY SSF51445 (Trans)glycosidases 20 486 3.31E-104
5 g17009.t1 SignalP_EUK SignalP-noTM SignalP-noTM 1 16 -
15 g17009.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 592 609 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

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