General information for g582.t6
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.t6 | isoform | g582.t6 | 4309151 | 4311317 |
| chr_3 | g582 | g582.t6 | exon | g582.t6.exon1 | 4309151 | 4310013 |
| chr_3 | g582 | g582.t6 | TTS | g582.t6 | 4309156 | 4309156 |
| chr_3 | g582 | g582.t6 | exon | g582.t6.exon2 | 4310072 | 4310197 |
| chr_3 | g582 | g582.t6 | cds | g582.t6.CDS1 | 4310177 | 4310197 |
| chr_3 | g582 | g582.t6 | exon | g582.t6.exon3 | 4310250 | 4310460 |
| chr_3 | g582 | g582.t6 | cds | g582.t6.CDS2 | 4310250 | 4310460 |
| chr_3 | g582 | g582.t6 | exon | g582.t6.exon4 | 4310513 | 4310873 |
| chr_3 | g582 | g582.t6 | cds | g582.t6.CDS3 | 4310513 | 4310873 |
| chr_3 | g582 | g582.t6 | exon | g582.t6.exon5 | 4310938 | 4310986 |
| chr_3 | g582 | g582.t6 | cds | g582.t6.CDS4 | 4310938 | 4310986 |
| chr_3 | g582 | g582.t6 | exon | g582.t6.exon6 | 4311157 | 4311317 |
| chr_3 | g582 | g582.t6 | TSS | g582.t6 | 4312263 | 4312263 |
Sequences
>g582.t6 Gene=g582 Length=1771
CTGTTAGTTTTTATTCTTAAATTAATTTAGTTCTTCTGTCTCGGTAAAATTGATTAGCAA
TTTTACCATTTTGTCCATACTTTGTGAAATTCCTATAATTTAAATCAAAAACCTCGGTGC
TACAATCAATTAAAATATAAAATCGAAAAAACATAATCAAGATGGCAGATAAACATAAGA
AAATCTCAAGATGGTATTTTGGTGGTTTAGCTAGTGCTGGTGCCGCTTGTGTAACACATC
CGCTCGACTTAATCAAAGTGCAACTTCAAACGTCACAAGAAAAAAAAGTTTCGATATTGA
GACTGACGGGTCATATTGTGAAAAATCAAGGAGTAACAGCACTCTACAATGGCATATCAG
CATCTCTTCTTCGTCAAATGACTTATTCAACAACGAGATTTGGAATTTATGAAGTTGGAA
AGCAGACTTTTGGCAATGATTTAGGTTTTTTGGGTAAAATTGTTCTTGCGGGTGCAGCAG
GAGCTGCTGGAGGCTTCGTGGGCACACCCGCTGATATGGTTAATGTTAGAATGCAAAATG
ATGTAAAACTTCCACTCGATCAACGACGAAATTACAAACACGCAATTGATGGCCTGTATA
GAGTTTATGCTGAAGAAGGTTTTACTCGACTTTTCTCTGGTGCTTCAACTGCAACAAGTA
GGGCAATTTTCATGACTATTGGACAACTATCATTCTATGACCAAGTGAAAAAAATGTTGC
TTGAAACTGGTTACTTCCAAGACAATTTATTCTTACATTTTACGGCATCAAGTATTGCAG
GTGTGGTATTGCAACATGTATGACTCAACCACTGGATGTGCTTAAAACAAGAGCAATGAA
TGCCAAACCTGGTGAATTTAATGGAATTTTCGATATTGTTCGAAGTGTTGCCAAACTTGG
TCCTTTAGGATTCTTTAAAGGATACGTTCCAGCATTTGTGCGATTAGGTCCACACACTGT
TCTCACTTTCATATTCCTTGAACAGTTAAGAATGAACTTTGGATTTCTACCCGAGGAAAA
TAAGAAGTAGACTGACTAATCAATCGTTATCAGTATACTAAATTTCGTTTGCTGCCTCTT
GTGTCCTAACTTTAAAAATATAATGCTCGTTGACTTCACTTTAGAAAAAAAAAGTTGAGA
AAAATTTAAAAATTGATTGTGAAAATTGTGACAATAATTCTCAAGTCGATTGGCCATTAC
ATAAGTGTCTAAATGTTATCAACCTAAACGTTGTAATTGTAAATGTAGTTTTAAAATTAT
GCAAGTATCAAATTGCATTTAATCGCTTTGTTCAATCAATGAAAAAGTAATTGCAATATT
TTTACATTCCTTTCACAAAAAGAAAGCTTATTAAATATTTATATATTTATAATCTGACAT
ACTAACTTTGTTGATAATCTTAAAATTCTACTCTATTTCTTTTTCGTTTAAAATAAGGAA
TTGTTAAATAATTTTTATCACTCTATGTTTCTTATTAAATCTCGTTTTAAAAATATTAAA
ATAGCTATTGCATAATAGAGAAAAATGATATATTTACCAGAGGTACATTTTATTTTGCTA
TTACGATAAAAAAAATATACACATACAAGATGTTGTTTAGTGCTTTTAAAAATAATGAAT
GAGATAGAAAATGTTAAATATTTATGGCCCTAAGCATGAAATTATTTATCAAAATATTTT
AAACATTTTCTTTCTCTTTCATCGTTTATCATATCTGTAAAAGGTTGATTAAGAATAAAA
GATTGATGGTTAATCAAGTTAAAATTAAATT
>g582.t6 Gene=g582 Length=213
MADKHKKISRWYFGGLASAGAACVTHPLDLIKVQLQTSQEKKVSILRLTGHIVKNQGVTA
LYNGISASLLRQMTYSTTRFGIYEVGKQTFGNDLGFLGKIVLAGAAGAAGGFVGTPADMV
NVRMQNDVKLPLDQRRNYKHAIDGLYRVYAEEGFTRLFSGASTATSRAIFMTIGQLSFYD
QVKKMLLETGYFQDNLFLHFTASSIAGVVLQHV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g582.t6 | Gene3D | G3DSA:1.50.40.10 | Mitochondrial carrier domain | 9 | 213 | 4.0E-51 |
| 3 | g582.t6 | PANTHER | PTHR45618 | MITOCHONDRIAL DICARBOXYLATE CARRIER-RELATED | 7 | 210 | 4.3E-90 |
| 4 | g582.t6 | PANTHER | PTHR45618:SF13 | MITOCHONDRIAL DICARBOXYLATE CARRIER | 7 | 210 | 4.3E-90 |
| 2 | g582.t6 | Pfam | PF00153 | Mitochondrial carrier protein | 10 | 92 | 1.2E-19 |
| 1 | g582.t6 | Pfam | PF00153 | Mitochondrial carrier protein | 93 | 188 | 3.7E-17 |
| 11 | g582.t6 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 27 | - |
| 12 | g582.t6 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 12 | - |
| 13 | g582.t6 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 13 | 23 | - |
| 14 | g582.t6 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 24 | 27 | - |
| 10 | g582.t6 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 28 | 213 | - |
| 9 | g582.t6 | ProSiteProfiles | PS51257 | Prokaryotic membrane lipoprotein lipid attachment site profile. | 1 | 23 | 7.0 |
| 7 | g582.t6 | ProSiteProfiles | PS50920 | Solute carrier (Solcar) repeat profile. | 9 | 89 | 20.818 |
| 8 | g582.t6 | ProSiteProfiles | PS50920 | Solute carrier (Solcar) repeat profile. | 98 | 185 | 21.462 |
| 5 | g582.t6 | SUPERFAMILY | SSF103506 | Mitochondrial carrier | 5 | 211 | 2.75E-48 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g582/g582.t6; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g582.t6.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.
