Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative b 0,+-type amino acid transporter 1.

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_1 g14283 g14283.t3 isoform g14283.t3 36303250 36308157
chr_1 g14283 g14283.t3 exon g14283.t3.exon1 36303250 36303620
chr_1 g14283 g14283.t3 cds g14283.t3.CDS1 36303258 36303620
chr_1 g14283 g14283.t3 exon g14283.t3.exon2 36307739 36307863
chr_1 g14283 g14283.t3 cds g14283.t3.CDS2 36307739 36307741
chr_1 g14283 g14283.t3 exon g14283.t3.exon3 36307931 36308157
chr_1 g14283 g14283.t3 TTS g14283.t3 36308229 36308229
chr_1 g14283 g14283.t3 TSS g14283.t3 NA NA

Sequences

>g14283.t3 Gene=g14283 Length=723
AAGGACATATGTTAGAACCATTATCTTATATACATGTTACAAAATCAACACCATCTCCTG
CGGTGTTTCTTCAAGGAATTTTATCAATTATTTTTCTTACTGTTGGTGACATTTCCGCAT
TAATTGAATTTGCATCATTTTTAATTTGGTTTTTCTACGGAGCCGCGTGTGTATGCTTGC
TTGTAATGAGAAGAACTCATGCTCATGTTGAACGTTCATATAAAGTTCCTATTTTGTTGC
CAATAATTACGTTAATTGTATCAGTATTCCTTGTAATAACTCCTCTAATAGATAATCCAA
GTTTAAAATATTTAAGCGCTTTGGGTTTCATTTTTAGTGGCATTTTGGTTTATGCACCAT
TTGTCTATTATTAAACTAAAACACAATAACTTTTACTTTTTTAAACGAAATTCATATTTA
TTGAATGAAAAATCTGATATTTTGCACAATCAGGATAGTATTTTATTCAATAATTTCTCG
GATGTTGTTTTCGTTTAACTTACCAGTAGATGATTAAAAATGCATCAAGTGCAATAATTT
ATCGAAGTCTTCTAGCTTCACGTTCAGACTCGAGTAAAGTTAAAATGTCACCCTCACGAA
CTGGTCCTTTCACATTTCTGATGATAGCACGGGTTGGATCATTTAAGAACTCGACTTTTA
CTTGTGTACATTGACCTTGGGAGCCTGTACGCCCCAAGACTTTGATTACACGAGCTAAAA
CAA

>g14283.t3 Gene=g14283 Length=121
MLEPLSYIHVTKSTPSPAVFLQGILSIIFLTVGDISALIEFASFLIWFFYGAACVCLLVM
RRTHAHVERSYKVPILLPIITLIVSVFLVITPLIDNPSLKYLSALGFIFSGILVYAPFVY
Y

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g14283.t3 Gene3D G3DSA:1.20.1740.10 - 2 121 7.3E-10
2 g14283.t3 PANTHER PTHR11785:SF514 B(0,+)-TYPE AMINO ACID TRANSPORTER 1-LIKE PROTEIN 1 121 7.1E-45
3 g14283.t3 PANTHER PTHR11785 AMINO ACID TRANSPORTER 1 121 7.1E-45
1 g14283.t3 Pfam PF13520 Amino acid permease 6 105 8.6E-9
10 g14283.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 17 -
15 g14283.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 18 38 -
12 g14283.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 39 43 -
16 g14283.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 44 61 -
9 g14283.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 62 72 -
14 g14283.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 73 94 -
11 g14283.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 95 99 -
13 g14283.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 100 120 -
8 g14283.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 121 121 -
5 g14283.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 38 60 -
4 g14283.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 73 91 -
6 g14283.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 101 120 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016020 membrane CC
GO:0055085 transmembrane transport BP
GO:0022857 transmembrane transporter activity MF

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.

Raw TPM values