Gene loci information

Transcript annotation

  • This transcript has been annotated as 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_1 g10982 g10982.t3 TSS g10982.t3 13150897 13150897
chr_1 g10982 g10982.t3 isoform g10982.t3 13151353 13152865
chr_1 g10982 g10982.t3 exon g10982.t3.exon1 13151353 13151537
chr_1 g10982 g10982.t3 cds g10982.t3.CDS1 13151353 13151537
chr_1 g10982 g10982.t3 exon g10982.t3.exon2 13151884 13152865
chr_1 g10982 g10982.t3 cds g10982.t3.CDS2 13151884 13152865
chr_1 g10982 g10982.t3 TTS g10982.t3 13152864 13152864

Sequences

>g10982.t3 Gene=g10982 Length=1167
ATGGAGCAAAGTAATCAGAAAGTAGCAGACAATCCACGCGAGAAGGCCAATTTTGTATCA
ATTGTCACTTTCTTCTGGACGATACCACTTTTTCGAAAAGGATATAAGAAAGTGCTTGAA
ATTGAAGATCTTTATCGACCATTGAAAGTTGATGAGAGTGAAAATTTGGGAGATAGATTA
GAACAAAATTGGACAAAACAACTCAATGGAGCAAAGAAACCGTCACTCATGCGAGCTTTA
TCGCGCACATTTTGGAAAGAGTATATGATACTTGGACTTTATGCATTCACCACCGATATT
GTAATTCGACTTTCATTGCCCTTTTTTCTTGGACGACTTCTCGATTATTTTAGTCCAAAG
TCAACATTAACGAAAGATTATGCATATTTTTATGCTAGCATGCTCGTGCTGATTAATATT
GGCGGTGCTCTATTTGTCAATCAATTTATCCTTGGAAGTTTTTCAAATGGGATGAAAGTG
CGTCTTGCAACTTGTTCTCTAATTTATCGAAAAGCATTGAAATTGTCGACAACAGCTTTA
GGAAACACATCAGTAGGAAAAGTTGTAAATTTACTCAGTAATGATGTTTCTCGCTTCGAC
ATTGTGTCTGTTTTTATACATGCAATGTGGCTAGCGCCACTTCTAACGATCATTGTTGGA
ATTTTATTATATCAAGAGGTTGGCACTGCAGGCCTTGTTGGAATTTTAGTTATTGGAATA
GTTACACCACTTCAATCGTACACTGGCAAATTATCTTCAAAATTCAGACTTCAAACAGCA
ATTCGAACTGATGAGAGAGTTCGATTGATGGATGAGATAATAAATGGCATTCAAGTGATT
AAATTGTATGCTTGGGAAAAATCTTTCAAAAAGCTTATTCAAAATGCACGTATGAAGGAA
TTAAAAGTTATCAAAAAATCTTCATACATTCGTGCACTTTATATGACTTTCATGTTGTTT
ACAACTCGATCTGCACTTTATTGTACAATGATGGCAATTGTGGTTTTAGGCGATGAATTA
ACTGCATCAAAAGTATTTGTCATATCTTCATATTTTCAAATCATCTCATCAGTTATGTCA
CAAATGTTTGTGCGTGGGATTGCTGAAATTGCTGAAGCTTTTGTTGGAATTAAAAGACTT
CAAACTTTCCTCGAATATGATGAAAAA

>g10982.t3 Gene=g10982 Length=389
MEQSNQKVADNPREKANFVSIVTFFWTIPLFRKGYKKVLEIEDLYRPLKVDESENLGDRL
EQNWTKQLNGAKKPSLMRALSRTFWKEYMILGLYAFTTDIVIRLSLPFFLGRLLDYFSPK
STLTKDYAYFYASMLVLINIGGALFVNQFILGSFSNGMKVRLATCSLIYRKALKLSTTAL
GNTSVGKVVNLLSNDVSRFDIVSVFIHAMWLAPLLTIIVGILLYQEVGTAGLVGILVIGI
VTPLQSYTGKLSSKFRLQTAIRTDERVRLMDEIINGIQVIKLYAWEKSFKKLIQNARMKE
LKVIKKSSYIRALYMTFMLFTTRSALYCTMMAIVVLGDELTASKVFVISSYFQIISSVMS
QMFVRGIAEIAEAFVGIKRLQTFLEYDEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g10982.t3 CDD cd18579 ABC_6TM_ABCC_D1 90 380 6.07084E-101
5 g10982.t3 Gene3D G3DSA:1.20.1560.10 - 77 387 5.4E-23
2 g10982.t3 PANTHER PTHR24223:SF360 MULTIDRUG RESISTANCE-ASSOCIATED PROTEIN LETHAL(2)03659-LIKE PROTEIN-RELATED 1 388 6.0E-174
3 g10982.t3 PANTHER PTHR24223 ATP-BINDING CASSETTE SUB-FAMILY C 1 388 6.0E-174
1 g10982.t3 Pfam PF00664 ABC transporter transmembrane region 90 357 9.0E-30
7 g10982.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 87 -
13 g10982.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 88 109 -
12 g10982.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 110 128 -
18 g10982.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 129 151 -
8 g10982.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 152 200 -
16 g10982.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 201 224 -
11 g10982.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 225 229 -
14 g10982.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 230 248 -
9 g10982.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 249 311 -
17 g10982.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 312 336 -
10 g10982.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 337 341 -
15 g10982.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 342 364 -
6 g10982.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 365 389 -
26 g10982.t3 ProSiteProfiles PS50929 ABC transporter integral membrane type-1 fused domain profile. 101 363 31.9
4 g10982.t3 SUPERFAMILY SSF90123 ABC transporter transmembrane region 82 385 6.41E-34
25 g10982.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 88 110 -
23 g10982.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 130 152 -
24 g10982.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 201 223 -
21 g10982.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 227 249 -
20 g10982.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 313 335 -
22 g10982.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 345 367 -

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.

Raw TPM values