Gene loci information

Transcript annotation

  • This transcript has been annotated as Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex, 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 g635 g635.t17 TSS g635.t17 4679520 4679520
chr_3 g635 g635.t17 isoform g635.t17 4680338 4682989
chr_3 g635 g635.t17 exon g635.t17.exon1 4680338 4680606
chr_3 g635 g635.t17 cds g635.t17.CDS1 4680367 4680606
chr_3 g635 g635.t17 exon g635.t17.exon2 4681640 4682071
chr_3 g635 g635.t17 cds g635.t17.CDS2 4681640 4682071
chr_3 g635 g635.t17 exon g635.t17.exon3 4682134 4682439
chr_3 g635 g635.t17 cds g635.t17.CDS3 4682134 4682439
chr_3 g635 g635.t17 exon g635.t17.exon4 4682523 4682989
chr_3 g635 g635.t17 cds g635.t17.CDS4 4682523 4682657
chr_3 g635 g635.t17 TTS g635.t17 4683211 4683211

Sequences

>g635.t17 Gene=g635 Length=1474
GTGATGCAGTTGCAGCTGATGAGGTTGTTATGGAAATTGAAACCGATAAGACAACAGTTG
GTGTTCCAGCTCCATCGCATGGTATCATTGAGGAAATTTTTGTTTCAGACGGTGATACAG
TAAAGGCTGGACAACAGTTGTTCAAAATGAAGTTTACAGATGCCGCACCAGAAAAAGAAG
CATCAACTTCCACGCCAGAACCTCCAAAAGCAGCTGCTGCACCTTCACCACCACCACCAC
AACCTAAACAAGAAGCACCAAAAGCTGCTCCTCAACCACAAGCAGCACCACCACCTGCTG
CATCAACACCTCCACCACCGCCTCCAAAACCAGCAGCACCAGCAAAAACCGTTCCAATTG
CTGCCATTCGACATGCACAAGCTATCGATGCTGCCACAGTTAAAGTACCTCCAGCTGATT
ATACAAAAGAAATCACTGGCACACGCACGGAACAGCGTGTAAAAATGAATCGAATGCGTC
TAAAGATTGCATCACGTTTGAAGGAAGCACAAAATGTCAATGCAATGTTAACAACATTCA
ATGAAATTGATATGAGTGCAATCATGGAATTCCGCAAGTTGCATCAAGAAACCTTCCAAA
AGCGTTATGGAATTAAATTAGGATTTATGTCAGCTTTCTGTAAAGCTGCTGCTTATGCTC
TTCAAGATCAACCAGTTGTTAATGCTGTTATTGAAGATAATGAAATTGTTTATCGTGATT
ATGTTGATATTTCGGTTGCTGTTGCATCACCAAAAGGTTTAGTTGTGCCAGTTTTGCGTA
ATGTAGAATCAATGAATTATGCTGAAATTGAATTGGGTATCAATGCTTTGGGCGAGAAAG
CTCGTAATGGAACATTAGCTGTTGAAGATATGGACGGTGGTACTTTTACAATCAGTAATG
GAGGCGTATTTGGTTCACTAATGGGTACTCCAATTATTAATCCACCACAAAGTGCTATTC
TCGGTATGCACGCAACATTTGAGCGACCAGTGGCTATCAAAGGACAAGTCGTTATTCGTC
CCATGATGTACATCGCACTTACGTATGATCATCGTTTGATTGATGGACGTGAGGCTGTGA
CTTTCTTGCGTAAAATCAAAGCAGGTGTCGAAGATCCAAGAATCATCTTGGCTGGCGTTT
AAATAATTAACTGAAATGCTTGCACTATACGAGCGCATCGGACATACAAAAAACAATATT
TTTCGGTGAAATTTACTTACACTTAGGGCATATCTTTTTTTCTTCATTTGAACAATTCGA
CTTCAATAATAAAACCACAAGATGAATCTTTAAAATGTTAATTTAATAGTAAAAAAAGAA
TAAGCCGAGAGATAAAGATAAATTATTGACATAAACAAAAAACACTCGAGAGAAAGTAAT
TTGTATTAATGATGTGCACCATCGAGTTTATATAAGTTGAATATCAAAATCTGATCTATA
TCTATTGATGATAATAGACAAGACATTATCTACC

>g635.t17 Gene=g635 Length=370
MEIETDKTTVGVPAPSHGIIEEIFVSDGDTVKAGQQLFKMKFTDAAPEKEASTSTPEPPK
AAAAPSPPPPQPKQEAPKAAPQPQAAPPPAASTPPPPPPKPAAPAKTVPIAAIRHAQAID
AATVKVPPADYTKEITGTRTEQRVKMNRMRLKIASRLKEAQNVNAMLTTFNEIDMSAIME
FRKLHQETFQKRYGIKLGFMSAFCKAAAYALQDQPVVNAVIEDNEIVYRDYVDISVAVAS
PKGLVVPVLRNVESMNYAEIELGINALGEKARNGTLAVEDMDGGTFTISNGGVFGSLMGT
PIINPPQSAILGMHATFERPVAIKGQVVIRPMMYIALTYDHRLIDGREAVTFLRKIKAGV
EDPRIILAGV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g635.t17 CDD cd06849 lipoyl_domain 1 40 1.60497E-9
7 g635.t17 Gene3D G3DSA:2.40.50.100 - 1 43 2.4E-10
8 g635.t17 Gene3D G3DSA:3.30.559.10 Chloramphenicol Acetyltransferase 138 369 2.6E-90
11 g635.t17 MobiDBLite mobidb-lite consensus disorder prediction 41 105 -
10 g635.t17 MobiDBLite mobidb-lite consensus disorder prediction 60 105 -
3 g635.t17 PANTHER PTHR43416 DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT OF 2-OXOGLUTARATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL-RELATED 2 367 6.8E-136
4 g635.t17 PANTHER PTHR43416:SF18 DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT OF 2-OXOGLUTARATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL 2 367 6.8E-136
1 g635.t17 Pfam PF00364 Biotin-requiring enzyme 1 40 3.2E-9
2 g635.t17 Pfam PF00198 2-oxoacid dehydrogenases acyltransferase (catalytic domain) 140 366 5.5E-76
12 g635.t17 ProSiteProfiles PS50968 Biotinyl/lipoyl domain profile. 1 41 17.557
5 g635.t17 SUPERFAMILY SSF51230 Single hybrid motif 2 59 8.64E-11
6 g635.t17 SUPERFAMILY SSF52777 CoA-dependent acyltransferases 140 367 4.89E-84
13 g635.t17 TIGRFAM TIGR01347 sucB: dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase (succinyl-transferring) complex 1 367 3.7E-142

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:0006099 tricarboxylic acid cycle BP
GO:0045252 oxoglutarate dehydrogenase complex CC
GO:0016746 acyltransferase activity MF
GO:0004149 dihydrolipoyllysine-residue succinyltransferase 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