Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable methylmalonate-semialdehyde dehydrogenase [acylating], mitochondrial.

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_3 g823 g823.t8 TTS g823.t8 6263611 6263611
chr_3 g823 g823.t8 isoform g823.t8 6263835 6270027
chr_3 g823 g823.t8 exon g823.t8.exon1 6263835 6263949
chr_3 g823 g823.t8 exon g823.t8.exon2 6264346 6265255
chr_3 g823 g823.t8 cds g823.t8.CDS1 6264346 6265255
chr_3 g823 g823.t8 exon g823.t8.exon3 6265420 6265474
chr_3 g823 g823.t8 cds g823.t8.CDS2 6265420 6265474
chr_3 g823 g823.t8 exon g823.t8.exon4 6266159 6266192
chr_3 g823 g823.t8 cds g823.t8.CDS3 6266159 6266192
chr_3 g823 g823.t8 exon g823.t8.exon5 6266299 6266366
chr_3 g823 g823.t8 cds g823.t8.CDS4 6266299 6266366
chr_3 g823 g823.t8 exon g823.t8.exon6 6266441 6266795
chr_3 g823 g823.t8 cds g823.t8.CDS5 6266441 6266795
chr_3 g823 g823.t8 exon g823.t8.exon7 6268390 6268467
chr_3 g823 g823.t8 cds g823.t8.CDS6 6268390 6268419
chr_3 g823 g823.t8 exon g823.t8.exon8 6269929 6270027
chr_3 g823 g823.t8 TSS g823.t8 6270055 6270055

Sequences

>g823.t8 Gene=g823 Length=1714
GTGTACAAAAATTATCATCTAGAAACTTAATTTTAATTTAAAATTCAAATTGAATTTGTT
AAATTAATTTGTGAGAGTTGATAACAGCACTTGTTTATTATTAAAAATTTATCGTCTTAA
AAATAATCAACTGATAAAGAATTAATCATGTCGCTCTTCAGAATCGCATCAGCGGAGAAT
GTTATCAAGCGCTCATATAACACCACAAATGTCGCACCCACTGTCAAAATGTTCATTGAT
GGAAAATTTGTTGATTCACAAGCCAAAGAATGGATTGATTTACATGATCCAGCAACAAAT
GAGCTTGTAACACGCGTTCCAAAGTGCACTCTTGATGAAATGAATGCTGCTGTTGAATCA
TCGAAACGCGCTTTTAAGACATGGAGTCAAACATCAATTCTTACACGTCAGCAAGTCATG
CTCAAATTGCAGCATATTATTCGCGCCAATATGTCTGAATTAGCTAAGAATATTACAAAA
GAACAGGGAAAAACACTTGTCGATGCTGAAGGCGATGTTTTAAGAGGATTGCAGGTTGTT
GAGCACATGTGCAGCATTACATCGCTTCAACAAGGCGAGACGATGCCAAATATTGCAAAG
GATATGGATACTTATAGTTATACTCTTCCACTTGGAGTTACTGCTGGAATTACACCTTTC
AATTTTCCTGCTATGATTCCACTTTGGATGTTCCCTGTTGCAATTACATGTGGAAATACG
AGCATCATTAAGCCATCTGAAAGAGATCCAGGTGCAACACTTTTACTCTGTGAAATGCTC
AATGAAGCAGGCTGTCCTCCAGGCGTTGTAAACGTTATTCATGGCGCTCACGATGCGGTC
AATTTCATCTGTGATCATCCCGATATCAAGGCAATTTCATTCGTTGGTTCTGACCAGGCT
GGCAAATACATTTACGAACGTGGTTGCCGCAATGGTAAACGTGTACAAAGCAACATGGGT
GCAAAGAATCATGGTGTGGTAATGGCTGACGCAAATAAGAATGCAACATTAAATCAACTC
GCTGGTGCTGCATTTGGTGCTGCTGGTCAACGTTGTATGGCATTGTCAACTGCAATCTTT
GTTGGTGAAGCACGTGAATGGATTCCTGATTTGGTTGAACGAGCTGCAAAATTAAAAGTT
GGTCCAGGAGACAAACCCGGTGTTGATCTCGGTCCAGTCATTTCACCACAATCAAAGAAA
CGTATTCTCGATCTTGTGCAGTCAGGCGTCGATGAAGGCGCGAAAATCGTCCTTGATGGA
CGTGACATTAAAATTGATGGCTATGAAAAGGGTAACTTTGTTGGACCAACAATTCTCGTC
AATGTGACGCCTTCAATGAAATGCTATAAAGAAGAAATTTTCGGACCAGTTCTTGTATGT
TTAACGGCAGAGACGCTTGATGAAGCCATTGACATCATTAATAAGAACCCATACGGCAAT
GGCACAGCTATTTTCACAACGAATGGCGCGACAGCGAGGAAATTTGTCAATGAAATTGAT
GTTGGACAAGTTGGCGTTAATGTTCCCATTCCTGTGCCATTACCAATGTTCTCATTCACT
GGATCACGTGGTAGTTTCTGGGGCTCAGAACATTTGTAACTACGGTAAGCAAGGCATCAA
GTTCTATACCCAAACGAAGACGGTTACTCAATTGTGGCGCGAGACAGATGTGACGCATAC
TCAAGCAGCAGTTGCCATGCCCACAATGAAATAA

>g823.t8 Gene=g823 Length=483
MSLFRIASAENVIKRSYNTTNVAPTVKMFIDGKFVDSQAKEWIDLHDPATNELVTRVPKC
TLDEMNAAVESSKRAFKTWSQTSILTRQQVMLKLQHIIRANMSELAKNITKEQGKTLVDA
EGDVLRGLQVVEHMCSITSLQQGETMPNIAKDMDTYSYTLPLGVTAGITPFNFPAMIPLW
MFPVAITCGNTSIIKPSERDPGATLLLCEMLNEAGCPPGVVNVIHGAHDAVNFICDHPDI
KAISFVGSDQAGKYIYERGCRNGKRVQSNMGAKNHGVVMADANKNATLNQLAGAAFGAAG
QRCMALSTAIFVGEAREWIPDLVERAAKLKVGPGDKPGVDLGPVISPQSKKRILDLVQSG
VDEGAKIVLDGRDIKIDGYEKGNFVGPTILVNVTPSMKCYKEEIFGPVLVCLTAETLDEA
IDIINKNPYGNGTAIFTTNGATARKFVNEIDVGQVGVNVPIPVPLPMFSFTGSRGSFWGS
EHL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g823.t8 CDD cd07085 ALDH_F6_MMSDH 26 482 0.0
6 g823.t8 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A 46 479 2.6E-140
7 g823.t8 Gene3D G3DSA:3.40.309.10 Aldehyde Dehydrogenase; Chain A 271 471 2.6E-140
2 g823.t8 PANTHER PTHR43866:SF3 METHYLMALONATE-SEMIALDEHYDE DEHYDROGENASE [ACYLATING], MITOCHONDRIAL 10 482 6.6E-259
3 g823.t8 PANTHER PTHR43866 MALONATE-SEMIALDEHYDE DEHYDROGENASE 10 482 6.6E-259
1 g823.t8 Pfam PF00171 Aldehyde dehydrogenase family 34 481 8.2E-133
5 g823.t8 ProSitePatterns PS00070 Aldehyde dehydrogenases cysteine active site. 296 307 -
4 g823.t8 SUPERFAMILY SSF53720 ALDH-like 17 482 8.51E-138
8 g823.t8 TIGRFAM TIGR01722 MMSDH: methylmalonate-semialdehyde dehydrogenase (acylating) 26 482 4.1E-227

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:0016620 oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor MF
GO:0004491 methylmalonate-semialdehyde dehydrogenase (acylating) activity MF
GO:0055114 NA NA
GO:0016491 oxidoreductase activity MF

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