General information for g4576.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Mitochondrial basic amino acids transporter.
Parent gene
- The parent gene g4576 is located on chr_2: 3279942..3281296 (- 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_2 | g4576 | g4576.t3 | TTS | g4576.t3 | 3279097 | 3279097 |
| chr_2 | g4576 | g4576.t3 | isoform | g4576.t3 | 3279206 | 3281296 |
| chr_2 | g4576 | g4576.t3 | exon | g4576.t3.exon1 | 3279206 | 3279834 |
| chr_2 | g4576 | g4576.t3 | cds | g4576.t3.CDS1 | 3279206 | 3279834 |
| chr_2 | g4576 | g4576.t3 | exon | g4576.t3.exon2 | 3279897 | 3280411 |
| chr_2 | g4576 | g4576.t3 | cds | g4576.t3.CDS2 | 3279897 | 3280053 |
| chr_2 | g4576 | g4576.t3 | exon | g4576.t3.exon3 | 3281001 | 3281296 |
| chr_2 | g4576 | g4576.t3 | TSS | g4576.t3 | 3281296 | 3281296 |
Sequences
>g4576.t3 Gene=g4576 Length=1440
AGTTAATCTTTAGATTTCGAGCAGTAAGGATTGAAATAATTTTGACAGCAAAGAGTGGTA
AAATAATTTTTAATTTTGCACCTAGTGGACAACGTTTAAATAGTTGGGTGCATAAAATAA
CAAAATCAAAAAGTACGAGCAAGCGTTTTTGAAAATTTTCACTTCAAGTCAAGAATGATA
ATTTACAACATAAAAAAATTTATCATTAAACATATTGACGCATCATAGGAAAATTTTTGA
GCAAAACATAAAGCTTAAAAAAAGCTCTGACATCACAGTTGATATAGAAAAACAATTTGA
TAAGAAGAAGCTTTACTTAGAAAAAATTAATTTTTACTTCTATTCACAGGATGTTGCGGA
CTGCTAGTTGGCCACCCGTTTGATACAGTGAAAGTGCATTTACAAACACAAGATTATAAA
AATCCGCTTTATCGCGGCACATATGACTGCCTCAAAAAAATTGTACAAAAAGAATCACTA
CATGGACTTTATCGAGGCCTCTCATCACCTTTAGCCTCAATTTCAGTACTGAATGCAATT
GTATTTGGCGTATATGGAAACGTACAACGACAAACGAAGGATCCAGAATCATTATTTGCA
CACTTTTGTGCTGGCACAGCAGCTGGACTTAGTCAAACATTGATTTGCAGTCCTATGGAA
TTGGTTAAATCTCGATTACAAATTCAAAATAATATTCCAAATGCAGTAAAACACAAAAAT
CCTTTTCAAGCATTAAAATATTTGTGGAATACCGAAGGACGTCGTGGTGTTTTCAAAGGT
TTGGGAATCACAATTGCTAGAGATGTTCCAGGCTTTTCAAGTTATTTCGTTTCTTTTGAA
ATGATGATGCGACAAACAAAAGATCCAAGTGCTTTTTACACACTCATTGCTGGTGGTTTA
GCTGGAACATTCTCATGGATTATATCTTTCCCTGTTGATGTTGTAAAATCTCGTCTACAA
GTTGATGGCATTGATGGAAGACCAAGATATAATGGAGCCATTGACTGCATAAAGAAAAGC
TATCAAGCTGAAGGATTAGCATTTTTCACAAGAGGATTGAATTCAACACTTATTAGAGCC
TTTCCAATGAATGCCGTTTGTTTCCTCGTGGTTTCACAAGTCATGAAATTCTTCCAAAAT
AAAAGTCTTGATGTGTCGATTTCACAAAGTGAACCACTGCCAATTGTCGATTACAATCAA
GGTTTCATCACACGTGTCTTTAATCGTATTCATCATGGCTCACCATATCAACATAAATCA
ATAAGGTACCTGATTTTCTTGGATGGCTTCCACGAAGCAACATGCCATGCAGACATGATA
GATTTATCGGATCAACTCAGGGAACAGAGGAAAACCTTTGAATACTATTACAAAATGAAC
GATGGTGTTATGACTAAAAATTTATCAGAAGATGAATTAAAAACGCCAATTATTTGTTAA
>g4576.t3 Gene=g4576 Length=261
MELVKSRLQIQNNIPNAVKHKNPFQALKYLWNTEGRRGVFKGLGITIARDVPGFSSYFVS
FEMMMRQTKDPSAFYTLIAGGLAGTFSWIISFPVDVVKSRLQVDGIDGRPRYNGAIDCIK
KSYQAEGLAFFTRGLNSTLIRAFPMNAVCFLVVSQVMKFFQNKSLDVSISQSEPLPIVDY
NQGFITRVFNRIHHGSPYQHKSIRYLIFLDGFHEATCHADMIDLSDQLREQRKTFEYYYK
MNDGVMTKNLSEDELKTPIIC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g4576.t3 | Gene3D | G3DSA:1.50.40.10 | Mitochondrial carrier domain | 1 | 171 | 8.9E-43 |
| 3 | g4576.t3 | PANTHER | PTHR45624:SF10 | MITOCHONDRIAL BASIC AMINO ACIDS TRANSPORTER | 1 | 160 | 1.6E-47 |
| 4 | g4576.t3 | PANTHER | PTHR45624 | MITOCHONDRIAL BASIC AMINO ACIDS TRANSPORTER-RELATED | 1 | 160 | 1.6E-47 |
| 2 | g4576.t3 | Pfam | PF00153 | Mitochondrial carrier protein | 1 | 66 | 1.5E-12 |
| 1 | g4576.t3 | Pfam | PF00153 | Mitochondrial carrier protein | 70 | 163 | 3.3E-21 |
| 10 | g4576.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 72 | - |
| 14 | g4576.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 73 | 94 | - |
| 12 | g4576.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 95 | 138 | - |
| 13 | g4576.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 139 | 160 | - |
| 11 | g4576.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 161 | 261 | - |
| 9 | g4576.t3 | ProSiteProfiles | PS50920 | Solute carrier (Solcar) repeat profile. | 1 | 67 | 13.846 |
| 8 | g4576.t3 | ProSiteProfiles | PS50920 | Solute carrier (Solcar) repeat profile. | 71 | 159 | 25.409 |
| 6 | g4576.t3 | SUPERFAMILY | SSF103506 | Mitochondrial carrier | 1 | 153 | 6.54E-40 |
| 5 | g4576.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 73 | 92 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
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.
