General information for g635.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial .
Parent gene
- The parent gene g635 is located on chr_3: 4682651..4683238 (+ strand)
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.t13 | TSS | g635.t13 | 4679520 | 4679520 |
| chr_3 | g635 | g635.t13 | isoform | g635.t13 | 4679597 | 4683238 |
| chr_3 | g635 | g635.t13 | exon | g635.t13.exon1 | 4679597 | 4679662 |
| chr_3 | g635 | g635.t13 | cds | g635.t13.CDS1 | 4679597 | 4679662 |
| chr_3 | g635 | g635.t13 | exon | g635.t13.exon2 | 4679989 | 4680068 |
| chr_3 | g635 | g635.t13 | cds | g635.t13.CDS2 | 4679989 | 4680068 |
| chr_3 | g635 | g635.t13 | exon | g635.t13.exon3 | 4680127 | 4680255 |
| chr_3 | g635 | g635.t13 | cds | g635.t13.CDS3 | 4680127 | 4680255 |
| chr_3 | g635 | g635.t13 | exon | g635.t13.exon4 | 4680321 | 4680606 |
| chr_3 | g635 | g635.t13 | cds | g635.t13.CDS4 | 4680321 | 4680606 |
| chr_3 | g635 | g635.t13 | exon | g635.t13.exon5 | 4681640 | 4682071 |
| chr_3 | g635 | g635.t13 | cds | g635.t13.CDS5 | 4681640 | 4682071 |
| chr_3 | g635 | g635.t13 | exon | g635.t13.exon6 | 4682134 | 4682439 |
| chr_3 | g635 | g635.t13 | cds | g635.t13.CDS6 | 4682134 | 4682439 |
| chr_3 | g635 | g635.t13 | exon | g635.t13.exon7 | 4682523 | 4683238 |
| chr_3 | g635 | g635.t13 | cds | g635.t13.CDS7 | 4682523 | 4682657 |
| chr_3 | g635 | g635.t13 | TTS | g635.t13 | 4683211 | 4683211 |
Sequences
>g635.t13 Gene=g635 Length=2015
ATGATTCGATCACTTTCCTCATTTCCACGAAGTGTTGTTCTTCGCATAAGCAATAGAAGT
AATCAGCAAACGTTGAGGAATAATATTCATCAACAATGTGCCGTTCAAAAGTTGGTGCTT
ACATGCGACACAAATTCTCAAAATTCAACACTTAAAAATAGATTAGTTATGCAGCAACAA
CATGTTAGATTAATTCAAACAACTACGCAACTTCTTAATTCTGAAATCGTTAAGGTGCCA
CCATTTGCCGATTCTGTATCAGAAGGTGATGTAAAATTTGATAAGAAAGTAGGTGATGCA
GTTGCAGCTGATGAGGTTGTTATGGAAATTGAAACCGATAAGACAACAGTTGGTGTTCCA
GCTCCATCGCATGGTATCATTGAGGAAATTTTTGTTTCAGACGGTGATACAGTAAAGGCT
GGACAACAGTTGTTCAAAATGAAGTTTACAGATGCCGCACCAGAAAAAGAAGCATCAACT
TCCACGCCAGAACCTCCAAAAGCAGCTGCTGCACCTTCACCACCACCACCACAACCTAAA
CAAGAAGCACCAAAAGCTGCTCCTCAACCACAAGCAGCACCACCACCTGCTGCATCAACA
CCTCCACCACCGCCTCCAAAACCAGCAGCACCAGCAAAAACCGTTCCAATTGCTGCCATT
CGACATGCACAAGCTATCGATGCTGCCACAGTTAAAGTACCTCCAGCTGATTATACAAAA
GAAATCACTGGCACACGCACGGAACAGCGTGTAAAAATGAATCGAATGCGTCTAAAGATT
GCATCACGTTTGAAGGAAGCACAAAATGTCAATGCAATGTTAACAACATTCAATGAAATT
GATATGAGTGCAATCATGGAATTCCGCAAGTTGCATCAAGAAACCTTCCAAAAGCGTTAT
GGAATTAAATTAGGATTTATGTCAGCTTTCTGTAAAGCTGCTGCTTATGCTCTTCAAGAT
CAACCAGTTGTTAATGCTGTTATTGAAGATAATGAAATTGTTTATCGTGATTATGTTGAT
ATTTCGGTTGCTGTTGCATCACCAAAAGGTTTAGTTGTGCCAGTTTTGCGTAATGTAGAA
TCAATGAATTATGCTGAAATTGAATTGGGTATCAATGCTTTGGGCGAGAAAGCTCGTAAT
GGAACATTAGCTGTTGAAGATATGGACGGTGGTACTTTTACAATCAGTAATGGAGGCGTA
TTTGGTTCACTAATGGGTACTCCAATTATTAATCCACCACAAAGTGCTATTCTCGGTATG
CACGCAACATTTGAGCGACCAGTGGCTATCAAAGGACAAGTCGTTATTCGTCCCATGATG
TACATCGCACTTACGTATGATCATCGTTTGATTGATGGACGTGAGGCTGTGACTTTCTTG
CGTAAAATCAAAGCAGGTGTCGAAGATCCAAGAATCATCTTGGCTGGCGTTTAAATAATT
AACTGAAATGCTTGCACTATACGAGCGCATCGGACATACAAAAAACAATATTTTTCGGTG
AAATTTACTTACACTTAGGGCATATCTTTTTTTCTTCATTTGAACAATTCGACTTCAATA
ATAAAACCACAAGATGAATCTTTAAAATGTTAATTTAATAGTAAAAAAAGAATAAGCCGA
GAGATAAAGATAAATTATTGACATAAACAAAAAACACTCGAGAGAAAGTAATTTGTATTA
ATGATGTGCACCATCGAGTTTATATAAGTTGAATATCAAAATCTGATCTATATCTATTGA
TGATAATAGACAAGACATTATCTACCTATTGATTATTATTATTAACTATATACGAATCTT
TATTGCAATTCAATTTTGGCCGAGAAATGAAAGAAAAACCTCAACTCATTTCCCTAAATA
ATTTTTTTTGTGAAAAAATCGAAAAAGAGGATAAATGCAGGATAGCGTCATAAAAATCAC
ATTTAGTTCGACAACAATAAAATAATTTATTTAAAGTTTTAAAATAAAAAAAATAATTTG
CAAAAATAAAGAAAAACTTTTTAAGAATCAAAATG
>g635.t13 Gene=g635 Length=477
MIRSLSSFPRSVVLRISNRSNQQTLRNNIHQQCAVQKLVLTCDTNSQNSTLKNRLVMQQQ
HVRLIQTTTQLLNSEIVKVPPFADSVSEGDVKFDKKVGDAVAADEVVMEIETDKTTVGVP
APSHGIIEEIFVSDGDTVKAGQQLFKMKFTDAAPEKEASTSTPEPPKAAAAPSPPPPQPK
QEAPKAAPQPQAAPPPAASTPPPPPPKPAAPAKTVPIAAIRHAQAIDAATVKVPPADYTK
EITGTRTEQRVKMNRMRLKIASRLKEAQNVNAMLTTFNEIDMSAIMEFRKLHQETFQKRY
GIKLGFMSAFCKAAAYALQDQPVVNAVIEDNEIVYRDYVDISVAVASPKGLVVPVLRNVE
SMNYAEIELGINALGEKARNGTLAVEDMDGGTFTISNGGVFGSLMGTPIINPPQSAILGM
HATFERPVAIKGQVVIRPMMYIALTYDHRLIDGREAVTFLRKIKAGVEDPRIILAGV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g635.t13 | CDD | cd06849 | lipoyl_domain | 76 | 147 | 4.19175E-21 |
| 7 | g635.t13 | Gene3D | G3DSA:2.40.50.100 | - | 72 | 173 | 8.4E-18 |
| 8 | g635.t13 | Gene3D | G3DSA:3.30.559.10 | Chloramphenicol Acetyltransferase | 245 | 476 | 5.0E-90 |
| 11 | g635.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 151 | 212 | - |
| 12 | g635.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 167 | 212 | - |
| 3 | g635.t13 | PANTHER | PTHR43416 | DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT OF 2-OXOGLUTARATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL-RELATED | 60 | 474 | 1.8E-152 |
| 4 | g635.t13 | PANTHER | PTHR43416:SF18 | DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT OF 2-OXOGLUTARATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL | 60 | 474 | 1.8E-152 |
| 1 | g635.t13 | Pfam | PF00364 | Biotin-requiring enzyme | 77 | 147 | 1.3E-17 |
| 2 | g635.t13 | Pfam | PF00198 | 2-oxoacid dehydrogenases acyltransferase (catalytic domain) | 247 | 473 | 1.1E-75 |
| 10 | g635.t13 | ProSitePatterns | PS00189 | 2-oxo acid dehydrogenases acyltransferase component lipoyl binding site. | 98 | 127 | - |
| 14 | g635.t13 | ProSiteProfiles | PS50968 | Biotinyl/lipoyl domain profile. | 74 | 148 | 24.11 |
| 5 | g635.t13 | SUPERFAMILY | SSF51230 | Single hybrid motif | 75 | 166 | 1.83E-19 |
| 6 | g635.t13 | SUPERFAMILY | SSF52777 | CoA-dependent acyltransferases | 247 | 474 | 9.34E-84 |
| 13 | g635.t13 | TIGRFAM | TIGR01347 | sucB: dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase (succinyl-transferring) complex | 77 | 474 | 2.4E-155 |
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
Orthology
- This transcript has been annotated with K00658 (2-oxoglutarate dehydrogenase E2 component (dihydrolipoamide succinyltransferase))
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. There were no conditions that were differentially expressed