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 g11799 g11799.t3 isoform g11799.t3 18488225 18490410
chr_1 g11799 g11799.t3 exon g11799.t3.exon1 18488225 18488329
chr_1 g11799 g11799.t3 cds g11799.t3.CDS1 18488296 18488329
chr_1 g11799 g11799.t3 exon g11799.t3.exon2 18488895 18489493
chr_1 g11799 g11799.t3 cds g11799.t3.CDS2 18488895 18489493
chr_1 g11799 g11799.t3 exon g11799.t3.exon3 18489561 18489929
chr_1 g11799 g11799.t3 cds g11799.t3.CDS3 18489561 18489563
chr_1 g11799 g11799.t3 exon g11799.t3.exon4 18490312 18490410
chr_1 g11799 g11799.t3 TSS g11799.t3 18490417 18490417
chr_1 g11799 g11799.t3 TTS g11799.t3 NA NA

Sequences

>g11799.t3 Gene=g11799 Length=1172
AATTAGTTTTTAGAGAGTAAAGAGATTAAAAAATGCAGTACTATCTAAATTAAATATTGT
GAGTGTTTCATAGTCAGGTGTCAATAAACCTACCAAAGGATTATCTCTGTATCATCATCA
TCATCATCATCATTAACAGTAGAAAAAAATTTCAAAATGAATTTTAATATTACGGACTTT
TGTCCTAAAAACATTAGCTTCAGTGATATTTGGATAAATCATTCACTAAATCAATGTTTC
TTCGATACAGTATCCAGTTCAATTTTAGCAGCATATATTCTTATTTTTGGAACCATTCAA
ATAGTAATATACCGAAAATATGCAACTCGTATTGCGGATAGACGTTTGCAATCTTCTTTC
TTTTATTCTCTTCAATTATTTTTAATGCTCTTATTACCTATATTATGTGTTGTACGTTTG
ATATTAAGATGGAAAGTTTATGAACCTTCACAAATATATGGATACATGATTGCATATACA
ATTTTATCAATTTTTGGATACATGTTTGCAATATGTCTAATTCTAAAAGAAAGACACTAT
CAACTTCCCGCAACTCCATCAAGAGGACATGGATTGACTCTTCTTTTCTTTTTCACACTA
GTTTTCATATGTCAAAATTTGGCATTAGTTAATCTGAATGGCGATAATTGGTGGTTTGCA
ATGAAATCAAGGACTGACAAAATTGAAATGGGCCTTTTTATTACACGTTATATATGTACA
CTGTTTGTTTTTGTACTTGGTCTAAAAGCTCCAGGCATTCAAAGTATAGCAACAGAAGAA
GAATCTTCATTAGTTACAGAGGAAAACGATAATGCGGAAAATCGCTCAACGTTTCGAAAT
GCATACAAAAAAATGAAGACACTATTTCCCTATTTATGGCCAAAAAAGAATTTTTTACTA
CAGGCACGTGTGATTTTTTGTTTCGTGCTTTTGATTGCTGGACGTATGATCAATGTTTAT
GTACCTATTTACAATAAGAAAATTGTTGATTCGTTGTCTGGAGAAAATGCTACATTTAGA
TGGGATTGGATTTGCATATATGTAGCATTCAAATTTCTACAAGTTAAGAGGCGGTACTGG
AAGTATGGGTTTGCTCAATAATTTGAGAACATTTCTATGGATAAAAATTCAGCAATATAC
AACGAGAACAATGAAAATCTCACTTTTGCACA

>g11799.t3 Gene=g11799 Length=211
MIAYTILSIFGYMFAICLILKERHYQLPATPSRGHGLTLLFFFTLVFICQNLALVNLNGD
NWWFAMKSRTDKIEMGLFITRYICTLFVFVLGLKAPGIQSIATEEESSLVTEENDNAENR
STFRNAYKKMKTLFPYLWPKKNFLLQARVIFCFVLLIAGRMINVYVPIYNKKIVDSLSGE
NATFRWDWICIYVAFKFLQVKRRYWKYGFAQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g11799.t3 Gene3D G3DSA:1.20.1560.10 - 112 207 8.1E-16
1 g11799.t3 Pfam PF16185 Mitochondrial ABC-transporter N-terminal five TM region 1 139 2.2E-49
12 g11799.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
17 g11799.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 22 -
8 g11799.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 23 33 -
18 g11799.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 34 55 -
13 g11799.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 56 74 -
16 g11799.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 75 93 -
10 g11799.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 94 142 -
15 g11799.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 143 162 -
11 g11799.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 163 181 -
14 g11799.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 182 198 -
9 g11799.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 199 211 -
6 g11799.t3 SUPERFAMILY SSF90123 ABC transporter transmembrane region 131 202 1.57E-5
3 g11799.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 20 -
5 g11799.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 35 57 -
2 g11799.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 77 99 -
4 g11799.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 144 166 -

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.

Raw TPM values