General information for g582.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Mitochondrial dicarboxylate carrier.
Parent gene
- The parent gene g582 is located on chr_3: 4310514..4312262 (- 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 | g582 | g582.t13 | isoform | g582.t13 | 4310514 | 4312262 |
| chr_3 | g582 | g582.t13 | exon | g582.t13.exon1 | 4310514 | 4310873 |
| chr_3 | g582 | g582.t13 | cds | g582.t13.CDS1 | 4310515 | 4310873 |
| chr_3 | g582 | g582.t13 | exon | g582.t13.exon2 | 4310938 | 4310986 |
| chr_3 | g582 | g582.t13 | cds | g582.t13.CDS2 | 4310938 | 4310986 |
| chr_3 | g582 | g582.t13 | exon | g582.t13.exon3 | 4312139 | 4312262 |
| chr_3 | g582 | g582.t13 | TSS | g582.t13 | 4312263 | 4312263 |
| chr_3 | g582 | g582.t13 | TTS | g582.t13 | NA | NA |
Sequences
>g582.t13 Gene=g582 Length=533
TTTCATTTTCTACATCAGAAGAGAAGTGTGTTGCTGTGTGCGATATTCAGACCTTTTTTC
ATATTTTCAGTCGAAACCAACTGTTGCACACGATAAGTTGAAATTAAGTGAAGGATACAA
TAAGATGGCAGATAAACATAAGAAAATCTCAAGATGGTATTTTGGTGGTTTAGCTAGTGC
TGGTGCCGCTTGTGTAACACATCCGCTCGACTTAATCAAAGTGCAACTTCAAACGTCACA
AGAAAAAAAAGTTTCGATATTGAGACTGACGGGTCATATTGTGAAAAATCAAGGAGTAAC
AGCACTCTACAATGGCATATCAGCATCTCTTCTTCGTCAAATGACTTATTCAACAACGAG
ATTTGGAATTTATGAAGTTGGAAAGCAGACTTTTGGCAATGATTTAGGTTTTTTGGGTAA
AATTGTTCTTGCGGGTGCAGCAGGAGCTGCTGGAGGCTTCGTGGGCACACCCGCTGATAT
GGTTAATGTTAGAATGCAAAATGATGTAAAACTTCCACTCGATCAACGACGAA
>g582.t13 Gene=g582 Length=136
MADKHKKISRWYFGGLASAGAACVTHPLDLIKVQLQTSQEKKVSILRLTGHIVKNQGVTA
LYNGISASLLRQMTYSTTRFGIYEVGKQTFGNDLGFLGKIVLAGAAGAAGGFVGTPADMV
NVRMQNDVKLPLDQRR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g582.t13 | Gene3D | G3DSA:1.50.40.10 | Mitochondrial carrier domain | 9 | 136 | 1.1E-30 |
| 3 | g582.t13 | PANTHER | PTHR45618 | MITOCHONDRIAL DICARBOXYLATE CARRIER-RELATED | 7 | 136 | 1.6E-56 |
| 4 | g582.t13 | PANTHER | PTHR45618:SF13 | MITOCHONDRIAL DICARBOXYLATE CARRIER | 7 | 136 | 1.6E-56 |
| 1 | g582.t13 | Pfam | PF00153 | Mitochondrial carrier protein | 10 | 92 | 3.8E-20 |
| 2 | g582.t13 | Pfam | PF00153 | Mitochondrial carrier protein | 93 | 129 | 1.0E-5 |
| 10 | g582.t13 | ProSiteProfiles | PS51257 | Prokaryotic membrane lipoprotein lipid attachment site profile. | 1 | 23 | 7.0 |
| 9 | g582.t13 | ProSiteProfiles | PS50920 | Solute carrier (Solcar) repeat profile. | 9 | 89 | 20.818 |
| 8 | g582.t13 | ProSiteProfiles | PS50920 | Solute carrier (Solcar) repeat profile. | 98 | 136 | 8.011 |
| 6 | g582.t13 | SUPERFAMILY | SSF103506 | Mitochondrial carrier | 5 | 132 | 6.41E-30 |
| 5 | g582.t13 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 95 | 117 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g582/g582.t13; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g582.t13.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
