Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative ATP-binding cassette sub-family B member 10, mitochondrial.

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 g9781 g9781.t2 TSS g9781.t2 5151055 5151055
chr_1 g9781 g9781.t2 isoform g9781.t2 5151278 5152066
chr_1 g9781 g9781.t2 exon g9781.t2.exon1 5151278 5151347
chr_1 g9781 g9781.t2 cds g9781.t2.CDS1 5151278 5151347
chr_1 g9781 g9781.t2 exon g9781.t2.exon2 5151404 5151610
chr_1 g9781 g9781.t2 cds g9781.t2.CDS2 5151404 5151610
chr_1 g9781 g9781.t2 exon g9781.t2.exon3 5151705 5152066
chr_1 g9781 g9781.t2 cds g9781.t2.CDS3 5151705 5152066
chr_1 g9781 g9781.t2 TTS g9781.t2 NA NA

Sequences

>g9781.t2 Gene=g9781 Length=639
ATGAAATTTAAAAATTCTGATCTAAAGCGACTCTTGTCATTAGCTAAACCAGAAAAATGG
TCAATTGCAGGTGCAATCGGATGTCTGATAATTTCTTCTTCAATAACAATGGCTGTTCCA
TTCGGTTTAGGGAAGATCCTCGATGCAATATATTCAACTGACACAGATAGCAAGCAAGCT
AGAGAGAAACTCAATGAATTTTGTGCCATTCTTGCTGGCATTTTCATTATCGGAGGTGTT
GCAAATTTTGGCCGCGTCTACTTGTTTAATAACGCATCATTGAGAATCACAAAAAGATTA
CGAGAGTTACTCTATAAAAGAATAACTATGCAAGAATGTTCATGGTTTGATACAAAAGGT
ACTGGTGAATTAGTCAATCGTTTGTCTGCTGATACATCAATGGTCGGTAATTCTTTAAGT
CAAAATCTTTCCGATGGCTTAAGATCAACTGCAATGGTTTTGGCTGGGACAGGAATGATG
ATTTATACATCACCTAGTTTAGCTTTAGTTGGTGCCGGAGTTGTTCCTTGTGTAGCCGGA
ATGGCTGTTGTTTATGGCCGATATTTAAGAAACATCACAAGACAAATGATGGATAAACTC
GCTGATGTAATGAAAGTTGGTGAAGAACGAATGGGAAAT

>g9781.t2 Gene=g9781 Length=213
MKFKNSDLKRLLSLAKPEKWSIAGAIGCLIISSSITMAVPFGLGKILDAIYSTDTDSKQA
REKLNEFCAILAGIFIIGGVANFGRVYLFNNASLRITKRLRELLYKRITMQECSWFDTKG
TGELVNRLSADTSMVGNSLSQNLSDGLRSTAMVLAGTGMMIYTSPSLALVGAGVVPCVAG
MAVVYGRYLRNITRQMMDKLADVMKVGEERMGN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g9781.t2 Gene3D G3DSA:1.20.1560.10 - 4 213 7.7E-62
2 g9781.t2 PANTHER PTHR24221 ATP-BINDING CASSETTE SUB-FAMILY B 3 213 6.1E-91
3 g9781.t2 PANTHER PTHR24221:SF553 LD18126P 3 213 6.1E-91
1 g9781.t2 Pfam PF00664 ABC transporter transmembrane region 25 213 1.0E-44
12 g9781.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
16 g9781.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 43 -
10 g9781.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 44 63 -
15 g9781.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 64 84 -
13 g9781.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 85 166 -
14 g9781.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 167 189 -
11 g9781.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 190 213 -
9 g9781.t2 ProSiteProfiles PS50929 ABC transporter integral membrane type-1 fused domain profile. 23 213 34.246
7 g9781.t2 SUPERFAMILY SSF90123 ABC transporter transmembrane region 7 212 1.31E-45
6 g9781.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 42 -
5 g9781.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 67 89 -
4 g9781.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 167 189 -

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