Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative ATP-binding cassette sub-family D member 3.

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 g14245 g14245.t2 TSS g14245.t2 35827429 35827429
chr_1 g14245 g14245.t2 isoform g14245.t2 35827653 35830176
chr_1 g14245 g14245.t2 exon g14245.t2.exon1 35827653 35827759
chr_1 g14245 g14245.t2 cds g14245.t2.CDS1 35827653 35827759
chr_1 g14245 g14245.t2 exon g14245.t2.exon2 35828584 35828702
chr_1 g14245 g14245.t2 cds g14245.t2.CDS2 35828584 35828702
chr_1 g14245 g14245.t2 exon g14245.t2.exon3 35829724 35829914
chr_1 g14245 g14245.t2 cds g14245.t2.CDS3 35829724 35829914
chr_1 g14245 g14245.t2 exon g14245.t2.exon4 35829974 35830176
chr_1 g14245 g14245.t2 cds g14245.t2.CDS4 35829974 35830174
chr_1 g14245 g14245.t2 TTS g14245.t2 NA NA

Sequences

>g14245.t2 Gene=g14245 Length=620
ATGGCAAATTTAAGTAAATTAACACAACGCAATGAATTTATCTGTGCAGCTGGTGTTGCA
GCCGCTGGTTTATTGTTGGCAATTTCCAAATATTCAAGAGAGCAAAGGCGTAAAAATTTA
AGGCCAGAAGATAAGATTGAATATTTTATCAGTGAGAAAAAGGATACGAAACGAGTAAAA
GCACATGTGAACGCAAAATTCTTCAAACAGCTGCGATTTTTACTTGGAATATTGGTTCCG
AGAAAATTAAGTGCAGAAACATTATTGTTAGTTGGTATTGCTGCTTCCCTTATTCTTCGC
TCAGTTAGTGACATTTGGATGATCCAAAATGCGACAATTATTGAAAGTTCAATCATTACG
ATGAATCATCAAAAGTTTAGAACTTCATTATGGAAATTTTTAGCTGCTATGCCAGCTATT
GCTGTCGTTAACAATGTGCTGAAATGGAGCATTGGCGAGTTGAAAATTAGATTTCGAACA
AATTTATCAAAGTATCTTTTTGATCAATACTTGAAAAATTATACATATTACAAGATGAGT
AATTTAGATAATCGAATTGCAAATGCCGATCAACTATTAACAACTGACATTGATAAATTC
TGTGAATCAACTGTTGACTT

>g14245.t2 Gene=g14245 Length=206
MANLSKLTQRNEFICAAGVAAAGLLLAISKYSREQRRKNLRPEDKIEYFISEKKDTKRVK
AHVNAKFFKQLRFLLGILVPRKLSAETLLLVGIAASLILRSVSDIWMIQNATIIESSIIT
MNHQKFRTSLWKFLAAMPAIAVVNNVLKWSIGELKIRFRTNLSKYLFDQYLKNYTYYKMS
NLDNRIANADQLLTTDIDKFCESTVD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g14245.t2 PANTHER PTHR11384 ATP-BINDING CASSETTE, SUB-FAMILY D MEMBER 1 204 7.2E-34
3 g14245.t2 PANTHER PTHR11384:SF58 ABC TRANSPORTER, CONSERVED SITE 1 204 7.2E-34
1 g14245.t2 Pfam PF06472 ABC transporter transmembrane region 2 74 205 2.1E-40
8 g14245.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 12 -
11 g14245.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 13 31 -
5 g14245.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 32 87 -
10 g14245.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 88 109 -
7 g14245.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 110 128 -
9 g14245.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 129 147 -
6 g14245.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 148 206 -
4 g14245.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 32 -

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:0055085 transmembrane transport BP
GO:0005524 ATP binding MF
GO:0042626 ATPase-coupled transmembrane transporter activity MF
GO:0016021 integral component of membrane CC

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