Gene loci information

Transcript annotation

  • This transcript has been annotated as Peroxisomal multifunctional enzyme type 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_1 g12123 g12123.t11 TSS g12123.t11 21151265 21151265
chr_1 g12123 g12123.t11 isoform g12123.t11 21151944 21154814
chr_1 g12123 g12123.t11 exon g12123.t11.exon1 21151944 21151985
chr_1 g12123 g12123.t11 exon g12123.t11.exon2 21152046 21152605
chr_1 g12123 g12123.t11 cds g12123.t11.CDS1 21152057 21152605
chr_1 g12123 g12123.t11 exon g12123.t11.exon3 21152703 21152826
chr_1 g12123 g12123.t11 cds g12123.t11.CDS2 21152703 21152826
chr_1 g12123 g12123.t11 exon g12123.t11.exon4 21152896 21153096
chr_1 g12123 g12123.t11 cds g12123.t11.CDS3 21152896 21153096
chr_1 g12123 g12123.t11 exon g12123.t11.exon5 21153157 21153426
chr_1 g12123 g12123.t11 cds g12123.t11.CDS4 21153157 21153426
chr_1 g12123 g12123.t11 exon g12123.t11.exon6 21153593 21153799
chr_1 g12123 g12123.t11 cds g12123.t11.CDS5 21153593 21153799
chr_1 g12123 g12123.t11 exon g12123.t11.exon7 21154256 21154814
chr_1 g12123 g12123.t11 cds g12123.t11.CDS6 21154256 21154467
chr_1 g12123 g12123.t11 TTS g12123.t11 21154817 21154817

Sequences

>g12123.t11 Gene=g12123 Length=1963
GTGCTAAATATAATGTTCATTGTAATACAATTTGTCCAACTGCTGCATCAAGAATGACAA
AAGGTATTTTACCTGATGATCTATTTGATGAAATGAAACCAGAATTGATTGCACCAGTAG
TGGTTTACTTATGTCATGAAGACACAATGGATAATGGTCAAGTCATTGAGAGTGCAGTTG
GTTTTGCAACAAAAGTTCATTTTGTACGAGGCAAGGGAAGTTTAATTCGAGATAGCATCA
AAGATGTTCCAACACCTGAAACTGTTAAGGCGAAATGGGGCAAAATTACTGACATGAAGA
ATGCAAAGCATTTCAATTCAAATATGGAAGTCAGTTCTTCATTTGTCAGCGTTATGGATA
GATTGAAAAATCCCTTGCCTAAAGATACATTTGAAGATACTTACACTTATACATTCCGTG
ACACAATTCTATATGCATTGGGAATTGGAGTTGGAACCGAAGATGAAAGCAATTTGAAAT
TCATTTATGAAAATCATCCAAACTTTGCCGCATTCCCAACTTATGCAGTTATTCCTTCTA
TTATTATGCTAATGACATCAAGCATAACACCATCAGCCCTGGAAAACTTTGATCTTTCTC
AAGTCTTGCATGGCGAACAATTTATTGAAATTGTAAATCCTATGAGAACAGAAGGAACAC
TTACAACTCGTGGAAATGTGATTGATGTTCAACAGAAAAAATCTGGTGTTGTTGTTACTA
CTGAATGTCTTTCATATGATGAAGGCGGTCAACTTATGACACGATCACAGTCAAGTACAT
TCATTGTACGCGGAAAATCAAACGGAAAATATGGTGGAAATCCAGAAAAAGTGATCAACA
TTATACCAAATCCAAGCAGACAACCTGATCACACTTCGATTGTCAAGACGAATGTTGATC
AAGCTGCTTTATATCGTCTTTCAGGCGATCTCAATCCATTGCACATCGATCCAAATTTTG
CACTTCTTGGTGGTTTTAATCGTCCAATTATTCACGGTTTGTGCACTTTCGGTGTCTCTG
TTCGTGCAGTGTTGAAACAATATGCTGATAATGACCCATCACTTTTCAAGGCTGTTAAAG
TTCGTTTTACTAAACCTGTTTTTCCTGGTGATACCTTGAAAGTTGAGATGTGGCAAGAAG
GCAACAGAATTCATTTTAGAACTCTTCTCGCTGAGTCTAACACTGAAGTTATTAGTGGCG
CTTATGTGGATTTATTGAACGTTATAAAATCGACATCAACATCAGAAAGCATTCCACAGT
CATCTAGCAACATGGCACTTCAATCGGACGCAGTTTTTGCAGCAATTAAAGAACGAGTCA
ATGCTGATAAAGCAAAGGCAAAAAGTGTTAATGGAGTTTTTCTTTATAAAATTACAAAGG
ATGGAAAAGTTGCAAAAGAATGGACATTGGATTTGAAAAATGCAGTTATATCAGAAGGTG
CACCATCAGGAAAAGCCGATACAACAATCACTATTGCTGATGAAGACTTTATTGATATTG
CCCTTGGTAAATTAAATCCACAACAAGCATTCATGAAGGGAAAACTAAAGATTCAGGGAA
ATATTATGCTGGCACAAAAACTCAGCCCACTACTCAAGACAGATGCTAAATTGTAAAGCG
GATAGTAACAAAAATACACAATTATTTTGTTCATATGACTGCGTGTGTCAATCAACGACT
CTTTTCATTATTTTTTTGTCATTCTGCTGGGCAATATATGTATAATTATAGACACAAATA
TCGCTTTAATTGCAATTATATTCCAAAATGAAATTTTAGCTCATAAGCAATTTTTTACTT
CTTATCAACTTATTTCTTTCCAATGGTGGTCAAGAAAAATTAATTTAATGTTTTGAGAAG
AAATTAAAATTAAATTGACATTCATTTTTTTAAATGTGTTTTGTATAATGCTAATTTGAT
GAGGGATTTTATAATAAAATGAAAACTGGGGCTTATAAGAAAA

>g12123.t11 Gene=g12123 Length=520
MTKGILPDDLFDEMKPELIAPVVVYLCHEDTMDNGQVIESAVGFATKVHFVRGKGSLIRD
SIKDVPTPETVKAKWGKITDMKNAKHFNSNMEVSSSFVSVMDRLKNPLPKDTFEDTYTYT
FRDTILYALGIGVGTEDESNLKFIYENHPNFAAFPTYAVIPSIIMLMTSSITPSALENFD
LSQVLHGEQFIEIVNPMRTEGTLTTRGNVIDVQQKKSGVVVTTECLSYDEGGQLMTRSQS
STFIVRGKSNGKYGGNPEKVINIIPNPSRQPDHTSIVKTNVDQAALYRLSGDLNPLHIDP
NFALLGGFNRPIIHGLCTFGVSVRAVLKQYADNDPSLFKAVKVRFTKPVFPGDTLKVEMW
QEGNRIHFRTLLAESNTEVISGAYVDLLNVIKSTSTSESIPQSSSNMALQSDAVFAAIKE
RVNADKAKAKSVNGVFLYKITKDGKVAKEWTLDLKNAVISEGAPSGKADTTITIADEDFI
DIALGKLNPQQAFMKGKLKIQGNIMLAQKLSPLLKTDAKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g12123.t11 CDD cd03448 HDE_HSD 267 387 0.00000
11 g12123.t11 Gene3D G3DSA:3.30.160.260 - 54 107 0.00000
10 g12123.t11 Gene3D G3DSA:3.10.129.10 Hotdog Thioesterase 110 396 0.00000
9 g12123.t11 Gene3D G3DSA:3.30.1050.10 - 402 517 0.00000
4 g12123.t11 PANTHER PTHR13078:SF56 PEROXISOMAL MULTIFUNCTIONAL ENZYME TYPE 2 1 390 0.00000
5 g12123.t11 PANTHER PTHR13078 PEROXISOMAL MULTIFUNCTIONAL ENZYME TYPE 2-RELATED 1 390 0.00000
1 g12123.t11 Pfam PF13452 N-terminal half of MaoC dehydratase 170 228 0.00017
3 g12123.t11 Pfam PF01575 MaoC like domain 267 381 0.00000
2 g12123.t11 Pfam PF02036 SCP-2 sterol transfer family 417 515 0.00000
7 g12123.t11 SUPERFAMILY SSF54637 Thioesterase/thiol ester dehydrase-isomerase 114 252 0.00000
6 g12123.t11 SUPERFAMILY SSF54637 Thioesterase/thiol ester dehydrase-isomerase 267 384 0.00000
8 g12123.t11 SUPERFAMILY SSF55718 SCP-like 407 515 0.00000

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

KEGG

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