Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative ATP-binding cassette sub-family B member 6, 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 g11798 g11798.t1 isoform g11798.t1 18487362 18487772
chr_1 g11798 g11798.t1 exon g11798.t1.exon1 18487362 18487772
chr_1 g11798 g11798.t1 cds g11798.t1.CDS1 18487362 18487772
chr_1 g11798 g11798.t1 TSS g11798.t1 NA NA
chr_1 g11798 g11798.t1 TTS g11798.t1 NA NA

Sequences

>g11798.t1 Gene=g11798 Length=411
ATGTTATCGTTTGTGTTGGTTTGCTTGGTGGATCATTTTTGTGCTTATTTGGTTGCTTAT
GGAAAAGATGGTGAAAAATTGACTGTTGGTGATTATGTTCTTTTTGCCACATATATTATC
CAATTATATGTGCCATTAAATTGGTTTGGACATACTATAGACAGATTCAGAAAAATTTTG
TCGATATGGGAAAATATGTTTGAATTAATGAAAGAAGAACAAGAAGTGATTGACGCACCT
GATGCTCCAGATTTAGTTTGTTCTCGTGGTGGAATTGATTTTTCAAATGTTACATTCGGA
TATTCACCTGAAAAAACAATTTTGAAAAATGTCACTTTCAACGTTAGTCCAGGAAAAACT
ATTGCCATAGTAGGACCATCAGGAAAATCTTTAAGAATATTAATTTATTAA

>g11798.t1 Gene=g11798 Length=136
MLSFVLVCLVDHFCAYLVAYGKDGEKLTVGDYVLFATYIIQLYVPLNWFGHTIDRFRKIL
SIWENMFELMKEEQEVIDAPDAPDLVCSRGGIDFSNVTFGYSPEKTILKNVTFNVSPGKT
IAIVGPSGKSLRILIY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g11798.t1 Gene3D G3DSA:1.20.1560.10 - 1 80 2.7E-15
6 g11798.t1 Gene3D G3DSA:3.40.50.300 - 82 131 3.1E-10
1 g11798.t1 PANTHER PTHR24221 ATP-BINDING CASSETTE SUB-FAMILY B 12 129 3.7E-21
2 g11798.t1 PANTHER PTHR24221:SF503 ATP-BINDING CASSETTE SUB-FAMILY B MEMBER 6, MITOCHONDRIAL 12 129 3.7E-21
11 g11798.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
12 g11798.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 1 -
13 g11798.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 2 10 -
15 g11798.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 11 19 -
10 g11798.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 28 -
14 g11798.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 29 49 -
9 g11798.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 50 136 -
8 g11798.t1 ProSiteProfiles PS50929 ABC transporter integral membrane type-1 fused domain profile. 1 58 9.553
4 g11798.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 37 128 7.97E-9
5 g11798.t1 SignalP_EUK SignalP-TM SignalP-TM 1 15 -
3 g11798.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 27 49 -

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