Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Multidrug resistance-associated protein 4.

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_3 g154 g154.t2 TTS g154.t2 1411521 1411521
chr_3 g154 g154.t2 isoform g154.t2 1411614 1412682
chr_3 g154 g154.t2 exon g154.t2.exon1 1411614 1411816
chr_3 g154 g154.t2 cds g154.t2.CDS1 1411615 1411816
chr_3 g154 g154.t2 exon g154.t2.exon2 1411881 1412111
chr_3 g154 g154.t2 cds g154.t2.CDS2 1411881 1412111
chr_3 g154 g154.t2 exon g154.t2.exon3 1412603 1412682
chr_3 g154 g154.t2 cds g154.t2.CDS3 1412603 1412682
chr_3 g154 g154.t2 TSS g154.t2 1412887 1412887

Sequences

>g154.t2 Gene=g154 Length=514
ATGAATAGTGATAAAAAGTCGACAAAAAGACCAGCCAATCCATATGATAAGGCGAACGTG
ATCTCTAAATACCTTTATTGGTGGCTCAAAGATTTATTTAAAGTCGGCTTATCACGTCAG
ATAATTGAGGCTGACATATACGAGAGTTGTAGGAAGCATACAAGTGATAAAGTGACGCGT
CGTTTTGAGATGCTTTGGGAAGATGAAATGCAAAAAGAAAAGCCAAGTTTAGTTCGTGTT
GCAACAAAAGTATTTTGGTTAAGAGTCATAATTGTTGGTATCATTTTTGCTTTATTTGAA
GTTGCATGCAAACTTTCAAATCCATTACTTTTGGGGTTATTGATCGGATATTTTACTAAT
AATCCTTATAATTTTTCAACAAATGATGCATATTTAATAGCAACTGGAATGGTTTTAACA
CTCATCCTTCCACTACTTTTCTTTCATCCATTTATGCTTTTTCTTTTTGATGAGGCAATG
AAACTACGAATCGCATGTTGTTCGCTCATTTACA

>g154.t2 Gene=g154 Length=171
MNSDKKSTKRPANPYDKANVISKYLYWWLKDLFKVGLSRQIIEADIYESCRKHTSDKVTR
RFEMLWEDEMQKEKPSLVRVATKVFWLRVIIVGIIFALFEVACKLSNPLLLGLLIGYFTN
NPYNFSTNDAYLIATGMVLTLILPLLFFHPFMLFLFDEAMKLRIACCSLIY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g154.t2 PANTHER PTHR24223 ATP-BINDING CASSETTE SUB-FAMILY C 3 171 4.2E-31
2 g154.t2 PANTHER PTHR24223:SF324 LD17001P 3 171 4.2E-31
6 g154.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 84 -
10 g154.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 85 118 -
8 g154.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 119 129 -
9 g154.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 130 156 -
7 g154.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 157 171 -
5 g154.t2 SUPERFAMILY SSF90123 ABC transporter transmembrane region 72 168 1.07E-6
4 g154.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 84 118 -
3 g154.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 133 155 -

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:0005524 ATP binding 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