Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Mitochondrial basic amino acids transporter.

Parent gene

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.t5 isoform g4576.t5 3279942 3281296
chr_2 g4576 g4576.t5 exon g4576.t5.exon1 3279942 3280358
chr_2 g4576 g4576.t5 cds g4576.t5.CDS1 3279943 3280358
chr_2 g4576 g4576.t5 exon g4576.t5.exon2 3280572 3280690
chr_2 g4576 g4576.t5 cds g4576.t5.CDS2 3280572 3280605
chr_2 g4576 g4576.t5 TTS g4576.t5 3280978 3280978
chr_2 g4576 g4576.t5 exon g4576.t5.exon3 3281001 3281296
chr_2 g4576 g4576.t5 TSS g4576.t5 3281296 3281296

Sequences

>g4576.t5 Gene=g4576 Length=832
AGTTAATCTTTAGATTTCGAGCAGTAAGGATTGAAATAATTTTGACAGCAAAGAGTGGTA
AAATAATTTTTAATTTTGCACCTAGTGGACAACGTTTAAATAGTTGGGTGCATAAAATAA
CAAAATCAAAAAGTACGAGCAAGCGTTTTTGAAAATTTTCACTTCAAGTCAAGAATGATA
ATTTACAACATAAAAAAATTTATCATTAAACATATTGACGCATCATAGGAAAATTTTTGA
GCAAAACATAAAGCTTAAAAAAAGCTCTGACATCACAGTTGATATAGAAAAACAATAAAG
AACTTTAATCATAAATTAAAAGAGGAATAAGACTGTTATTGAAGAGAAAAAAAATATTTA
AAGTAAGAAATTCTTTAAATTATGGCATTAGACTTTGTTGCTGGATGTCTTGGAGGATGT
TGCGGACTGCTAGTTGGCCACCCGTTTGATACAGTGAAAGTGCATTTACAAACACAAGAT
TATAAAAATCCGCTTTATCGCGGCACATATGACTGCCTCAAAAAAATTGTACAAAAAGAA
TCACTACATGGACTTTATCGAGGCCTCTCATCACCTTTAGCCTCAATTTCAGTACTGAAT
GCAATTGTATTTGGCGTATATGGAAACGTACAACGACAAACGAAGGATCCAGAATCATTA
TTTGCACACTTTTGTGCTGGCACAGCAGCTGGACTTAGTCAAACATTGATTTGCAGTCCT
ATGGAATTGGTTAAATCTCGATTACAAATTCAAAATAATATTCCAAATGCAGTAAAACAC
AAAAATCCTTTTCAAGCATTAAAATATTTGTGGAATACCGAAGGACGTCGTG

>g4576.t5 Gene=g4576 Length=150
MALDFVAGCLGGCCGLLVGHPFDTVKVHLQTQDYKNPLYRGTYDCLKKIVQKESLHGLYR
GLSSPLASISVLNAIVFGVYGNVQRQTKDPESLFAHFCAGTAAGLSQTLICSPMELVKSR
LQIQNNIPNAVKHKNPFQALKYLWNTEGRR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g4576.t5 Gene3D G3DSA:1.50.40.10 Mitochondrial carrier domain 1 150 1.9E-37
3 g4576.t5 PANTHER PTHR45624:SF10 MITOCHONDRIAL BASIC AMINO ACIDS TRANSPORTER 2 149 1.1E-45
4 g4576.t5 PANTHER PTHR45624 MITOCHONDRIAL BASIC AMINO ACIDS TRANSPORTER-RELATED 2 149 1.1E-45
1 g4576.t5 Pfam PF00153 Mitochondrial carrier protein 4 86 7.4E-19
2 g4576.t5 Pfam PF00153 Mitochondrial carrier protein 91 148 7.3E-11
10 g4576.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 56 -
13 g4576.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 57 81 -
11 g4576.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 82 92 -
12 g4576.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 93 111 -
9 g4576.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 112 150 -
7 g4576.t5 ProSiteProfiles PS50920 Solute carrier (Solcar) repeat profile. 1 86 21.762
8 g4576.t5 ProSiteProfiles PS50920 Solute carrier (Solcar) repeat profile. 91 150 11.829
5 g4576.t5 SUPERFAMILY SSF103506 Mitochondrial carrier 3 149 4.58E-39

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. There were no conditions that were differentially expressed