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.t2 TSS g14283.t2 36298910 36298910
chr_1 g14283 g14283.t2 isoform g14283.t2 36298911 36304176
chr_1 g14283 g14283.t2 exon g14283.t2.exon1 36298911 36299075
chr_1 g14283 g14283.t2 exon g14283.t2.exon2 36301683 36301736
chr_1 g14283 g14283.t2 exon g14283.t2.exon3 36301807 36302280
chr_1 g14283 g14283.t2 exon g14283.t2.exon4 36302475 36302685
chr_1 g14283 g14283.t2 exon g14283.t2.exon5 36302747 36302796
chr_1 g14283 g14283.t2 exon g14283.t2.exon6 36302936 36303186
chr_1 g14283 g14283.t2 cds g14283.t2.CDS1 36303009 36303186
chr_1 g14283 g14283.t2 exon g14283.t2.exon7 36303250 36303902
chr_1 g14283 g14283.t2 cds g14283.t2.CDS2 36303250 36303731
chr_1 g14283 g14283.t2 exon g14283.t2.exon8 36304173 36304176
chr_1 g14283 g14283.t2 TTS g14283.t2 NA NA

Sequences

>g14283.t2 Gene=g14283 Length=1862
AGTTGTAGTTTGAAATTGATTCGAGGAAGACGCTTACTGTTGTCGTATTTTTTTCATCAA
ATAACGTGAACAATAACAGTTTTTCTATTACGACATCCATATCTCTCAATTGTGATAAGA
AGAATTAGTTTAAATTTTTACAAACAAATGTTTTAAAGAAAAAAAAAAGAATAAAACAAT
AAAAGAGAGAATTTAAAACATTGAAGCAGTAAAAAATGGGAACAGAAGAAAGAAATGTGG
GATTGAGGAGAGAGATGGGGCTGATTGCTGCTGTGAATGTCATCTTAAATGTCATGATAG
GAAGTGGGATTTTCATATCACCACAAGACGCATTGAAATATTCTGGTTCTATTGGCGCTT
GTTTGATTGTTTGGTTAATATGCGGAATAATCTCATTAGTAGGTGCTTTATGCTTCGCTG
AATTAGGAAGTGTTGTACCGAAATCCGGAGCCGAATATGCCTACTTAATGGAAGCATTTG
GAAGAAATAGAAAAAGTAGATTTCTTGGGCCATTACCAGCATTTGTTTGTGCATGGATAT
ATGTAATGATATTGAGACCTGCTGAAATAGCAATTATCCTTCTAACATTCTCTGAATACT
CTATTCAACCTTTTGATTCATTACTTGGACTTTCAAATTTGTCACCTGAATCTAATTCAA
ATTTAATCAAAATTGTTGCATTTTTAACATTAGGAATAATCACATACATTAATATTTCAA
GTGTGAAGCTTTATGTCAAATTAAATAATATTTTTGGTGCTGCAAAAGTATTCGCATGTT
TTGTCGTGATATTTGGAGGCCTTTATCAATTGGCGATGGGAAACACTGAAAATTTAAAGT
CAGGTTTTACTGGAACAAATTTAAAATTTGGTGCTGTTGCTTTAGCTTTTTACAATGGTC
TATGGTCTTTTGATGGATGGTCTAGTGTAACAACTATCACAGGTAAATTATTCTAAACAT
ACCAAGATCAATATTGATCGCTGTGCCTCTTGTTACCCTTCTTTATGTGTTCATGAATGT
GTCTTATATGATTGTACTCGATAAATATGAAATGATTAATGCTGTAGCTGTTGGAATCTC
ATTTGCTGAAAAAGCTTTAGGACCATTTGCATTTCTAATTCCATTAGGTGTTGCTTTATC
AACTTTTGGTTGTGCCTTATCAATTCAATTTGGTGTCACAAGATTATGTTTTGTTGCGGG
AAGAGAAGGACATATGTTAGAACCATTATCTTATATACATGTTACAAAATCAACACCATC
TCCTGCGGTGTTTCTTCAAGGAATTTTATCAATTATTTTTCTTACTGTTGGTGACATTTC
CGCATTAATTGAATTTGCATCATTTTTAATTTGGTTTTTCTACGGAGCCGCGTGTGTATG
CTTGCTTGTAATGAGAAGAACTCATGCTCATGTTGAACGTTCATATAAAGTTCCTATTTT
GTTGCCAATAATTACGTTAATTGTATCAGTATTCCTTGTAATAACTCCTCTAATAGATAA
TCCAAGTTTAAAATATTTAAGCGCTTTGGGTTTCATTTTTAGTGGCATTTTGGTTTATGC
ACCATTTGTCTATTATAAAAAGAGACCACAATTTATGGACTCAATTACTCATTACATTCA
ATTGTTTTTTATGGTTGTGCCATCAACTAGCGAAATTGAGGAGAATAACAATGAAAAATT
ACATTAATCTTCAGTAATAAGTATATTTGAAGTTTTCTTTTAAAACGAAAATTTCATTTC
AGTTTAGTAATTAAGTGATTTATTTTTATAATTTACGATCAAATTAAAATTGAAAAAAAA
AATGAAATAATTTTTTACTTATTGAAAACCTTCATTATTTGCATATAATTATCATCACAA
CT

>g14283.t2 Gene=g14283 Length=219
MIVLDKYEMINAVAVGISFAEKALGPFAFLIPLGVALSTFGCALSIQFGVTRLCFVAGRE
GHMLEPLSYIHVTKSTPSPAVFLQGILSIIFLTVGDISALIEFASFLIWFFYGAACVCLL
VMRRTHAHVERSYKVPILLPIITLIVSVFLVITPLIDNPSLKYLSALGFIFSGILVYAPF
VYYKKRPQFMDSITHYIQLFFMVVPSTSEIEENNNEKLH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g14283.t2 Gene3D G3DSA:1.20.1740.10 - 1 202 1.4E-23
2 g14283.t2 PANTHER PTHR11785:SF514 B(0,+)-TYPE AMINO ACID TRANSPORTER 1-LIKE PROTEIN 1 209 7.2E-87
3 g14283.t2 PANTHER PTHR11785 AMINO ACID TRANSPORTER 1 209 7.2E-87
1 g14283.t2 Pfam PF13520 Amino acid permease 3 165 6.3E-15
13 g14283.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 26 -
18 g14283.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 27 55 -
11 g14283.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 56 75 -
19 g14283.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 76 94 -
14 g14283.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 95 99 -
20 g14283.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 100 121 -
10 g14283.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 122 132 -
17 g14283.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 133 156 -
15 g14283.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 157 161 -
16 g14283.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 162 183 -
12 g14283.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 184 219 -
5 g14283.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 28 50 -
8 g14283.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 78 95 -
7 g14283.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 99 121 -
4 g14283.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 134 156 -
6 g14283.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 166 183 -

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