Gene loci information

Transcript annotation

  • This transcript has been annotated as Glycogen debranching enzyme.

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 g4375 g4375.t1 TSS g4375.t1 1721243 1721243
chr_2 g4375 g4375.t1 isoform g4375.t1 1721254 1726223
chr_2 g4375 g4375.t1 exon g4375.t1.exon1 1721254 1721585
chr_2 g4375 g4375.t1 cds g4375.t1.CDS1 1721254 1721585
chr_2 g4375 g4375.t1 exon g4375.t1.exon2 1721641 1722289
chr_2 g4375 g4375.t1 cds g4375.t1.CDS2 1721641 1722289
chr_2 g4375 g4375.t1 exon g4375.t1.exon3 1722358 1723098
chr_2 g4375 g4375.t1 cds g4375.t1.CDS3 1722358 1723098
chr_2 g4375 g4375.t1 exon g4375.t1.exon4 1723156 1724347
chr_2 g4375 g4375.t1 cds g4375.t1.CDS4 1723156 1724347
chr_2 g4375 g4375.t1 exon g4375.t1.exon5 1724404 1724581
chr_2 g4375 g4375.t1 cds g4375.t1.CDS5 1724404 1724581
chr_2 g4375 g4375.t1 exon g4375.t1.exon6 1724639 1725270
chr_2 g4375 g4375.t1 cds g4375.t1.CDS6 1724639 1725270
chr_2 g4375 g4375.t1 exon g4375.t1.exon7 1725323 1725654
chr_2 g4375 g4375.t1 cds g4375.t1.CDS7 1725323 1725654
chr_2 g4375 g4375.t1 exon g4375.t1.exon8 1725714 1726223
chr_2 g4375 g4375.t1 cds g4375.t1.CDS8 1725714 1726223
chr_2 g4375 g4375.t1 TTS g4375.t1 1726420 1726420

Sequences

>g4375.t1 Gene=g4375 Length=4566
ATGTCAGAAGAAAGTAAGATCGTTAGTGTTAAAATAAATTATCAAAAGTTTGAGGATAGT
ACTCTGTACCGATTGAAAAAGAAAACGGTATTGCGCGTTGTGCCTGGTGAATCTCTTTTA
GGCAAGCACATTTCAATTCAAACTAATTACCCAACGAATGAGAAAAAAGAATTTGTAAGG
TATGAATTCGCAAACCTTCAATGGTATTCACGTTATGGCGAAAAACTGGATACAAGAGAT
GATTTTGCTGAAATCAAGGAACTTGAAATGTACTGTCAAGTACAAATGTTAAAATCTGGT
ACTTTTAAATTTAACATCATCGAAGAAGAGAGCAAAGCACTTGGTACATGTGGATCAATT
TATGTGCAAGTCGAGCCTGATATTCGTGTTGGTCATGATAAGCACAATCTTAAATTGGAG
TCTATTCGATGCCAAACTGTTTTAACTAAATGCCTTGGACCATTATCTTCGTGGGAGTCC
AAATTACGTGTAGCAAAAGAGAGTGGATATAATTTGATTCATTTTACACCCATTCAAGAA
TTGGCGGGAAGTAGATCAGCTTATTCATTGATGGATCAATTAAAAATTGATCACACTTAT
GGAAATGTTGGATATGAAGATGTTGGAAAGGTTGTTGCTAAAATGCGTGACGAATGGGGA
ATAGCTTCACTTTGTGACATTGTCCTAAATCATACTGGAAATGAATCACCATGGTTACAA
GAGCATCCAGAAGCAACTTATTCTTGTCATACAATGCCTCATTTGAGACCAGCTTTTCTT
CTCGATTTTTTACTTGCTAAAGTCGGTGAAGATTGTAATAAAGGAAATTTTGAAATGCTT
GGTTGTCCAGCAGTTATTGAAAATGAAGATCATCTTCAAGCTTTACGTTATCAAATTGTA
ACAAACTATCTGCCAAAGATCAACATTCATGAATTTTATCAAATTGATGTTGAAAAATAT
TTTACAATGTTTGTTGATGGTATGAGAACACGTGCACCACCAACTGCTTTAACAGAAGCT
GTTTCAACTGAACTTACGTTTGAAACACCAATCAATTATACTCGAAAAGAGGTTCATATA
AACATAGAACATGCTTTGAAAATTTATAATGTCTTTAGACCAGATTGTTTCGATGAAGAC
ACTCGTGTACGAAGATGTGGTGAAACTTTCCGTAAAGTACTCGAGGATTATAATAATAAA
ATTCGAGCAGAAATAGATGGAATGATGAACTATGCAATTGACAATTGTATTGCAGGAGCA
CGCTATGAAAGAGTTCAAAATGACGGTCCAAAATACAGAACGATTGATGTTTCACATCCA
TTATTTGTGCCATATTTTACTCATACCAATGCAGAAAAGGCCACAATTGAAGAGGTTGAA
AAAATGATGTATGGAGAAGGTGGAAAATATTTTATGGGTCATAATGGATGGGTTTTGGGC
CAAGATGCTCTAGTTGATTTTGCTCTTAAACAAGCTGGCATTGGTAATGTTTATTTGAAA
AGAGAGATTATCGCTTGGGGAGATTCTGTAAAACTTAGATATGGTGAGAAGCCTGAAGAT
AGTCCATATTTATGGCAACGTATGAAAGAATATGTCGAAACAACTGCTAAATATTTTGAT
GGACTTCGTCTCGACAACTGCCATTCGACTCCTTTACATGTGGCAGAATATTTGATTGAT
TGTGCACGAAAGGTCAATCCGGAGCTCTATGTTGTTGCAGAACTTTTTACAAACTCAGCC
GCTTCTGATAACATCTTTGTAAATCGTTTAGGAATAACTTCATTAATTCGTGAAGCTCTA
TCTGCCTGGGATTCTCACGAGGAAGGAAGATTGGTTTATTTGTATGGAGGCGAACCAGTT
GGAGCTTTCTTCAATAATCCAAAACGTCCGCTTGCACCTAGCATTGCACATGCAATTTTC
CTCGATCAATCACACGATAATCCATCACCAATTTTGAAACGTTCAGTCTTTGATTTGATG
CCATCATCTGCTTTAGTAAGTATGGCTTGTTGTGCGTCTGGCAGTAATCGTGGTTACGAT
GAACTTGTTCCACATCACATTCATGTAGTGACTGAAGAAAGACAATATCAAGAATGGGGA
AAAAATGTAAATGAAAATAGTGGAATTATTGCAGCTAAACGCGCATTAAATGATCTGCAT
GGTTTAATGGGAATTGAAGGCTATACAGAAGTTTTTGTTGATCAAATGCATCCCGATATT
GTTGCTGTTACTCGTCAAAATCCTATTACACATGAATCTTTTATTCTTGTTGCTCATACT
GCTTTCAGTTATCCCAATCCTTATGCCGGTGCAACTTATGTTAGACCCTTGATATTTGAG
GGAAAATTTGTAGAAATTTATCTTGAAGCAGAAATTCGCAGTCGCAAAGAACAACCATAT
GCAAGACCAAATGATTTCGTCAAAGATACAAAATACATCAATGGATTGACTGATTATGAA
GTAATTATCAGACAAAATATTCAATTGAAAGATTCAAAAATTTTCAAGAATGAACCTATT
ATTCATGGAGATAAAACACAATTAGATTTCATCAATTTAAAACCAGGCTCTGTTGTTGTT
GTTCGTGTTGTTCCACATAACGAAGTTAGTGTTCGTCTACGTGAATTGCATGTTATCGTT
CAAGAATTTCACAATCAAAAAGGACCGAAATTTAATGACTTGAAAAATATCATTTCAAAA
TTGGATTTAGTTGATTTGAATTTAGCACTCTTTTCATGTAATGAAGAAGAACGTGATCGA
GGACTTGGATTTGAAACTTATGATATTCCTGGGTTTTCTCGTTTGCCTTATGCTGGTTTA
CAAGGATTTTTATCTTATTTAAATGATATTTCACCTAAAAATGACCTCGGTCATCCATTC
TGTAATAATCTTAGAGAAGGAAATTGGATGATTGATTATATGTTTAATCGATTAAGACAA
TCTGATAAAACTAAAGAACTTGCTCATTGGCTTGAGGTGAATACTGAGCCAATGAAAGGT
ATTCCGAGATATCTGATACCTGCTTATTTCGATGTTATCGTTACTGGCGCCTATGAATTG
CTTATCGAACATGCATTAAAGTTGATGCCAAGTTTCATAAGCAAAGGATCAGTTTTCCAA
CAATTACTCGCTTTAGCATCACTTCAATTTTTAGCACCTATCAAATCAGCTCGTTTACCA
GATTTATCACCAAATATTAGTGACCCGAAACCTCCTACACTTTGTACTACTCTTGCTGCA
GGTTTACCACATTTCTCAACTGGATATATGCGCTGTTGGGGTCGAGACACTTTTATTGCA
TTGCGAGGATTGATGCTGCTCACAGGACGATACGACGAAGCTCGATATATTATTATTGGT
TTTGCTGGCACTCTTAGACATGGTTTAATTCCAAACTTACTTGACGGTGGCAAAAATTCT
CGCTTCAATTGTCGTGATGCTGTTTGGTGGTGGTTGTATTGTATTGAACAATATGTCACT
GAAGCACCAAATGGAAAAGCAATTTTACGTGAAAAAGTGTCACGCCTATTTCCTACTGAT
GACAGTGAAGCTAAACCAGCTGGAGAGTGTGATCAACTATTGTATGAAGTCATGCAAGAA
GCATTAAATGTTCACTTCCAAGGCCTTGTCTATCGTGAAAGAAATGCAGGAAAGCGAATC
GATGAACATATGACAGATCATGGTTTCAACAATCAAATTGGTATTCATCCAGAAACTGGA
TTTGTTTTTGGAGGTAATGACGCAAATTGTGGAACATGGATGGATAAAATGGGATCTTCA
CAGAAGGCTAATAACAAAGGTGTTCCATCTACTCCTCGTGACGGTTCTGCAGTTGAATTG
GTCGGATTGCAAGCAAGTGTATTGAAATTTTTGTCATCATGCTCTGATTATCCATACAAA
TCTGTAGAACGGAAGAATAAAGATAGTAATGAAACTATTTCTTGGTCTTTCAAAGAATGG
GCAGAAAAAATTGAAAAGAACTTTGAAAAATATTTCTATGTAGATGAAAACGATAGCAAT
ACTCTTGTTCATAAGCGAAAAATTTATAAAGACACACACGGAGCAAGTAGAAGATTTGCT
GATTTTCAATTAAGATGCAACTTTCCGATAGCAATGGTCGTTGCTCCTCAGCTGTTCAAT
CCGGATCATGCATGGGAAGCATTGGAAATGGCTCGTAAACACCTTCTTGGTCCACTTGGA
ATGAAGACACTTGATCCTGATGATTGGTCTTATCGTGGAAATTATGATAACTCTAATGAT
AGTGATGACCCGAAAGTAGCACACGGAGCAAATTATCATCAAGGACCTGAATGGCTCTGG
CCTATTGGTTACTATTTGCGTGCACGTTTGATTTTTGCTAAAAAATTGGGTAAATTGAAG
GAAACACAAGCAGAAACATGGAGCATTTTGACAGCACATTTGAAAGAATTGAGAACATCA
CCATGGCGTGGATTACCTGAATTGACTAATGAAAATGGATCATTCTGTAGTGGATCGTGC
ACAACACAAGCATGGTCTGTTGCTACAATTCTTGAAACTCTCTATGATTTGGAAAATCAT
AAATAA

>g4375.t1 Gene=g4375 Length=1521
MSEESKIVSVKINYQKFEDSTLYRLKKKTVLRVVPGESLLGKHISIQTNYPTNEKKEFVR
YEFANLQWYSRYGEKLDTRDDFAEIKELEMYCQVQMLKSGTFKFNIIEEESKALGTCGSI
YVQVEPDIRVGHDKHNLKLESIRCQTVLTKCLGPLSSWESKLRVAKESGYNLIHFTPIQE
LAGSRSAYSLMDQLKIDHTYGNVGYEDVGKVVAKMRDEWGIASLCDIVLNHTGNESPWLQ
EHPEATYSCHTMPHLRPAFLLDFLLAKVGEDCNKGNFEMLGCPAVIENEDHLQALRYQIV
TNYLPKINIHEFYQIDVEKYFTMFVDGMRTRAPPTALTEAVSTELTFETPINYTRKEVHI
NIEHALKIYNVFRPDCFDEDTRVRRCGETFRKVLEDYNNKIRAEIDGMMNYAIDNCIAGA
RYERVQNDGPKYRTIDVSHPLFVPYFTHTNAEKATIEEVEKMMYGEGGKYFMGHNGWVLG
QDALVDFALKQAGIGNVYLKREIIAWGDSVKLRYGEKPEDSPYLWQRMKEYVETTAKYFD
GLRLDNCHSTPLHVAEYLIDCARKVNPELYVVAELFTNSAASDNIFVNRLGITSLIREAL
SAWDSHEEGRLVYLYGGEPVGAFFNNPKRPLAPSIAHAIFLDQSHDNPSPILKRSVFDLM
PSSALVSMACCASGSNRGYDELVPHHIHVVTEERQYQEWGKNVNENSGIIAAKRALNDLH
GLMGIEGYTEVFVDQMHPDIVAVTRQNPITHESFILVAHTAFSYPNPYAGATYVRPLIFE
GKFVEIYLEAEIRSRKEQPYARPNDFVKDTKYINGLTDYEVIIRQNIQLKDSKIFKNEPI
IHGDKTQLDFINLKPGSVVVVRVVPHNEVSVRLRELHVIVQEFHNQKGPKFNDLKNIISK
LDLVDLNLALFSCNEEERDRGLGFETYDIPGFSRLPYAGLQGFLSYLNDISPKNDLGHPF
CNNLREGNWMIDYMFNRLRQSDKTKELAHWLEVNTEPMKGIPRYLIPAYFDVIVTGAYEL
LIEHALKLMPSFISKGSVFQQLLALASLQFLAPIKSARLPDLSPNISDPKPPTLCTTLAA
GLPHFSTGYMRCWGRDTFIALRGLMLLTGRYDEARYIIIGFAGTLRHGLIPNLLDGGKNS
RFNCRDAVWWWLYCIEQYVTEAPNGKAILREKVSRLFPTDDSEAKPAGECDQLLYEVMQE
ALNVHFQGLVYRERNAGKRIDEHMTDHGFNNQIGIHPETGFVFGGNDANCGTWMDKMGSS
QKANNKGVPSTPRDGSAVELVGLQASVLKFLSSCSDYPYKSVERKNKDSNETISWSFKEW
AEKIEKNFEKYFYVDENDSNTLVHKRKIYKDTHGASRRFADFQLRCNFPIAMVVAPQLFN
PDHAWEALEMARKHLLGPLGMKTLDPDDWSYRGNYDNSNDSDDPKVAHGANYHQGPEWLW
PIGYYLRARLIFAKKLGKLKETQAETWSILTAHLKELRTSPWRGLPELTNENGSFCSGSC
TTQAWSVATILETLYDLENHK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g4375.t1 CDD cd11327 AmyAc_Glg_debranch_2 119 602 0.0e+00
10 g4375.t1 Gene3D G3DSA:3.20.20.80 Glycosidases 120 340 0.0e+00
9 g4375.t1 Gene3D G3DSA:3.20.20.80 Glycosidases 477 703 0.0e+00
8 g4375.t1 Gene3D G3DSA:1.50.10.10 - 1084 1439 1.9e-06
5 g4375.t1 PANTHER PTHR10569 GLYCOGEN DEBRANCHING ENZYME 5 1519 0.0e+00
1 g4375.t1 Pfam PF14699 N-terminal domain from the human glycogen debranching enzyme 31 131 0.0e+00
3 g4375.t1 Pfam PF14701 Glycogen debranching enzyme, glucanotransferase domain 136 570 0.0e+00
2 g4375.t1 Pfam PF14702 Central domain of human glycogen debranching enzyme 708 978 0.0e+00
4 g4375.t1 Pfam PF06202 Amylo-alpha-1,6-glucosidase 1046 1512 0.0e+00
7 g4375.t1 SUPERFAMILY SSF51445 (Trans)glycosidases 136 719 0.0e+00
6 g4375.t1 SUPERFAMILY SSF48208 Six-hairpin glycosidases 1081 1520 0.0e+00
11 g4375.t1 TIGRFAM TIGR01531 glyc_debranch: glycogen debranching enzyme 22 1517 0.0e+00

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:0004135 amylo-alpha-1,6-glucosidase activity MF
GO:0005980 glycogen catabolic process BP
GO:0005978 glycogen biosynthetic process BP
GO:0005975 carbohydrate metabolic process BP
GO:0004134 4-alpha-glucanotransferase activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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