General information for g582.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t4 | isoform | g582.t4 | 4309151 | 4310986 |
| chr_3 | g582 | g582.t4 | exon | g582.t4.exon1 | 4309151 | 4310013 |
| chr_3 | g582 | g582.t4 | TTS | g582.t4 | 4309156 | 4309156 |
| chr_3 | g582 | g582.t4 | cds | g582.t4.CDS1 | 4309892 | 4310013 |
| chr_3 | g582 | g582.t4 | exon | g582.t4.exon2 | 4310072 | 4310197 |
| chr_3 | g582 | g582.t4 | cds | g582.t4.CDS2 | 4310072 | 4310197 |
| chr_3 | g582 | g582.t4 | exon | g582.t4.exon3 | 4310252 | 4310460 |
| chr_3 | g582 | g582.t4 | cds | g582.t4.CDS3 | 4310252 | 4310460 |
| chr_3 | g582 | g582.t4 | exon | g582.t4.exon4 | 4310513 | 4310986 |
| chr_3 | g582 | g582.t4 | cds | g582.t4.CDS4 | 4310513 | 4310706 |
| chr_3 | g582 | g582.t4 | TSS | g582.t4 | 4311353 | 4311353 |
Sequences
>g582.t4 Gene=g582 Length=1672
ATGGCAGATAAACATAAGAAAATCTCAAGATGGTATTTTGGTGGTTTAGGTAAATTTGTT
ATTTATTTGAATAATGATTAACTCAGTTTGATAATAAAAAAATAATTTTATAGCTAGTGC
TGGTGCCGCTTGTGTAACACATCCGCTCGACTTAATCAAAGTGCAACTTCAAACGTCACA
AGAAAAAAAAGTTTCGATATTGAGACTGACGGGTCATATTGTGAAAAATCAAGGAGTAAC
AGCACTCTACAATGGCATATCAGCATCTCTTCTTCGTCAAATGACTTATTCAACAACGAG
ATTTGGAATTTATGAAGTTGGAAAGCAGACTTTTGGCAATGATTTAGGTTTTTTGGGTAA
AATTGTTCTTGCGGGTGCAGCAGGAGCTGCTGGAGGCTTCGTGGGCACACCCGCTGATAT
GGTTAATGTTAGAATGCAAAATGATGTAAAACTTCCACTCGATCAACGACGAAATTACAA
ACACGCAATTGATGGCCTGTATAGAGTTTATGCTGAAGAAGGTTTTACTCGACTTTTCTC
TGGTGCTTCAACTGCAACAAGTAGGGCAATTTTCATGACTATTGGACAACTATCATTCTA
TGACCAAGTGAAAAAAATGTTGCTTGAAACTGGTTACTTCCAAGACAATTTATTCTTACA
TTTTACGGCATCAAGTATTGCAGGTGGTATTGCAACATGTATGACTCAACCACTGGATGT
GCTTAAAACAAGAGCAATGAATGCCAAACCTGGTGAATTTAATGGAATTTTCGATATTGT
TCGAAGTGTTGCCAAACTTGGTCCTTTAGGATTCTTTAAAGGATACGTTCCAGCATTTGT
GCGATTAGGTCCACACACTGTTCTCACTTTCATATTCCTTGAACAGTTAAGAATGAACTT
TGGATTTCTACCCGAGGAAAATAAGAAGTAGACTGACTAATCAATCGTTATCAGTATACT
AAATTTCGTTTGCTGCCTCTTGTGTCCTAACTTTAAAAATATAATGCTCGTTGACTTCAC
TTTAGAAAAAAAAAGTTGAGAAAAATTTAAAAATTGATTGTGAAAATTGTGACAATAATT
CTCAAGTCGATTGGCCATTACATAAGTGTCTAAATGTTATCAACCTAAACGTTGTAATTG
TAAATGTAGTTTTAAAATTATGCAAGTATCAAATTGCATTTAATCGCTTTGTTCAATCAA
TGAAAAAGTAATTGCAATATTTTTACATTCCTTTCACAAAAAGAAAGCTTATTAAATATT
TATATATTTATAATCTGACATACTAACTTTGTTGATAATCTTAAAATTCTACTCTATTTC
TTTTTCGTTTAAAATAAGGAATTGTTAAATAATTTTTATCACTCTATGTTTCTTATTAAA
TCTCGTTTTAAAAATATTAAAATAGCTATTGCATAATAGAGAAAAATGATATATTTACCA
GAGGTACATTTTATTTTGCTATTACGATAAAAAAAATATACACATACAAGATGTTGTTTA
GTGCTTTTAAAAATAATGAATGAGATAGAAAATGTTAAATATTTATGGCCCTAAGCATGA
AATTATTTATCAAAATATTTTAAACATTTTCTTTCTCTTTCATCGTTTATCATATCTGTA
AAAGGTTGATTAAGAATAAAAGATTGATGGTTAATCAAGTTAAAATTAAATT
>g582.t4 Gene=g582 Length=216
MTYSTTRFGIYEVGKQTFGNDLGFLGKIVLAGAAGAAGGFVGTPADMVNVRMQNDVKLPL
DQRRNYKHAIDGLYRVYAEEGFTRLFSGASTATSRAIFMTIGQLSFYDQVKKMLLETGYF
QDNLFLHFTASSIAGGIATCMTQPLDVLKTRAMNAKPGEFNGIFDIVRSVAKLGPLGFFK
GYVPAFVRLGPHTVLTFIFLEQLRMNFGFLPEENKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g582.t4 | Gene3D | G3DSA:1.50.40.10 | Mitochondrial carrier domain | 1 | 213 | 0.000 |
| 3 | g582.t4 | PANTHER | PTHR45618 | MITOCHONDRIAL DICARBOXYLATE CARRIER-RELATED | 1 | 208 | 0.000 |
| 4 | g582.t4 | PANTHER | PTHR45618:SF13 | MITOCHONDRIAL DICARBOXYLATE CARRIER | 1 | 208 | 0.000 |
| 1 | g582.t4 | Pfam | PF00153 | Mitochondrial carrier protein | 21 | 116 | 0.000 |
| 2 | g582.t4 | Pfam | PF00153 | Mitochondrial carrier protein | 123 | 205 | 0.000 |
| 7 | g582.t4 | ProSiteProfiles | PS50920 | Solute carrier (Solcar) repeat profile. | 26 | 113 | 21.462 |
| 8 | g582.t4 | ProSiteProfiles | PS50920 | Solute carrier (Solcar) repeat profile. | 122 | 206 | 21.312 |
| 5 | g582.t4 | SUPERFAMILY | SSF103506 | Mitochondrial carrier | 2 | 203 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g582/g582.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g582.t4.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.
