General information for g582.t1
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.t1 | TTS | g582.t1 | 4309156 | 4309156 |
| chr_3 | g582 | g582.t1 | isoform | g582.t1 | 4309892 | 4310986 |
| chr_3 | g582 | g582.t1 | exon | g582.t1.exon1 | 4309892 | 4310013 |
| chr_3 | g582 | g582.t1 | cds | g582.t1.CDS1 | 4309892 | 4310013 |
| chr_3 | g582 | g582.t1 | exon | g582.t1.exon2 | 4310072 | 4310197 |
| chr_3 | g582 | g582.t1 | cds | g582.t1.CDS2 | 4310072 | 4310197 |
| chr_3 | g582 | g582.t1 | exon | g582.t1.exon3 | 4310252 | 4310460 |
| chr_3 | g582 | g582.t1 | cds | g582.t1.CDS3 | 4310252 | 4310460 |
| chr_3 | g582 | g582.t1 | exon | g582.t1.exon4 | 4310513 | 4310873 |
| chr_3 | g582 | g582.t1 | cds | g582.t1.CDS4 | 4310513 | 4310873 |
| chr_3 | g582 | g582.t1 | exon | g582.t1.exon5 | 4310938 | 4310986 |
| chr_3 | g582 | g582.t1 | cds | g582.t1.CDS5 | 4310938 | 4310986 |
| chr_3 | g582 | g582.t1 | TSS | g582.t1 | 4311353 | 4311353 |
Sequences
>g582.t1 Gene=g582 Length=867
ATGGCAGATAAACATAAGAAAATCTCAAGATGGTATTTTGGTGGTTTAGCTAGTGCTGGT
GCCGCTTGTGTAACACATCCGCTCGACTTAATCAAAGTGCAACTTCAAACGTCACAAGAA
AAAAAAGTTTCGATATTGAGACTGACGGGTCATATTGTGAAAAATCAAGGAGTAACAGCA
CTCTACAATGGCATATCAGCATCTCTTCTTCGTCAAATGACTTATTCAACAACGAGATTT
GGAATTTATGAAGTTGGAAAGCAGACTTTTGGCAATGATTTAGGTTTTTTGGGTAAAATT
GTTCTTGCGGGTGCAGCAGGAGCTGCTGGAGGCTTCGTGGGCACACCCGCTGATATGGTT
AATGTTAGAATGCAAAATGATGTAAAACTTCCACTCGATCAACGACGAAATTACAAACAC
GCAATTGATGGCCTGTATAGAGTTTATGCTGAAGAAGGTTTTACTCGACTTTTCTCTGGT
GCTTCAACTGCAACAAGTAGGGCAATTTTCATGACTATTGGACAACTATCATTCTATGAC
CAAGTGAAAAAAATGTTGCTTGAAACTGGTTACTTCCAAGACAATTTATTCTTACATTTT
ACGGCATCAAGTATTGCAGGTGGTATTGCAACATGTATGACTCAACCACTGGATGTGCTT
AAAACAAGAGCAATGAATGCCAAACCTGGTGAATTTAATGGAATTTTCGATATTGTTCGA
AGTGTTGCCAAACTTGGTCCTTTAGGATTCTTTAAAGGATACGTTCCAGCATTTGTGCGA
TTAGGTCCACACACTGTTCTCACTTTCATATTCCTTGAACAGTTAAGAATGAACTTTGGA
TTTCTACCCGAGGAAAATAAGAAGTAG
>g582.t1 Gene=g582 Length=288
MADKHKKISRWYFGGLASAGAACVTHPLDLIKVQLQTSQEKKVSILRLTGHIVKNQGVTA
LYNGISASLLRQMTYSTTRFGIYEVGKQTFGNDLGFLGKIVLAGAAGAAGGFVGTPADMV
NVRMQNDVKLPLDQRRNYKHAIDGLYRVYAEEGFTRLFSGASTATSRAIFMTIGQLSFYD
QVKKMLLETGYFQDNLFLHFTASSIAGGIATCMTQPLDVLKTRAMNAKPGEFNGIFDIVR
SVAKLGPLGFFKGYVPAFVRLGPHTVLTFIFLEQLRMNFGFLPEENKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g582.t1 | Gene3D | G3DSA:1.50.40.10 | Mitochondrial carrier domain | 9 | 284 | 2.6E-77 |
| 4 | g582.t1 | PANTHER | PTHR45618 | MITOCHONDRIAL DICARBOXYLATE CARRIER-RELATED | 7 | 280 | 1.0E-119 |
| 5 | g582.t1 | PANTHER | PTHR45618:SF13 | MITOCHONDRIAL DICARBOXYLATE CARRIER | 7 | 280 | 1.0E-119 |
| 2 | g582.t1 | Pfam | PF00153 | Mitochondrial carrier protein | 10 | 92 | 2.3E-19 |
| 1 | g582.t1 | Pfam | PF00153 | Mitochondrial carrier protein | 93 | 188 | 7.3E-17 |
| 3 | g582.t1 | Pfam | PF00153 | Mitochondrial carrier protein | 195 | 277 | 1.1E-14 |
| 13 | g582.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 27 | - |
| 14 | g582.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 12 | - |
| 15 | g582.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 13 | 23 | - |
| 16 | g582.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 24 | 27 | - |
| 12 | g582.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 28 | 288 | - |
| 11 | g582.t1 | ProSiteProfiles | PS51257 | Prokaryotic membrane lipoprotein lipid attachment site profile. | 1 | 23 | 7.0 |
| 9 | g582.t1 | ProSiteProfiles | PS50920 | Solute carrier (Solcar) repeat profile. | 9 | 89 | 20.818 |
| 10 | g582.t1 | ProSiteProfiles | PS50920 | Solute carrier (Solcar) repeat profile. | 98 | 185 | 21.462 |
| 8 | g582.t1 | ProSiteProfiles | PS50920 | Solute carrier (Solcar) repeat profile. | 194 | 278 | 21.312 |
| 6 | g582.t1 | SUPERFAMILY | SSF103506 | Mitochondrial carrier | 5 | 275 | 6.8E-67 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g582/g582.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g582.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K13577 (solute carrier family 25 (mitochondrial dicarboxylate transporter), member 10)
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.
