General information for g11797.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATP-binding cassette sub-family B member 6, mitochondrial.
Parent gene
- The parent gene g11797 is located on chr_1: 18480537..18487218 (- strand)
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 | g11797 | g11797.t1 | TTS | g11797.t1 | 18480388 | 18480388 |
| chr_1 | g11797 | g11797.t1 | isoform | g11797.t1 | 18480537 | 18487218 |
| chr_1 | g11797 | g11797.t1 | exon | g11797.t1.exon1 | 18480537 | 18480891 |
| chr_1 | g11797 | g11797.t1 | cds | g11797.t1.CDS1 | 18480537 | 18480891 |
| chr_1 | g11797 | g11797.t1 | exon | g11797.t1.exon2 | 18480951 | 18481290 |
| chr_1 | g11797 | g11797.t1 | cds | g11797.t1.CDS2 | 18480951 | 18481290 |
| chr_1 | g11797 | g11797.t1 | exon | g11797.t1.exon3 | 18481390 | 18482328 |
| chr_1 | g11797 | g11797.t1 | cds | g11797.t1.CDS3 | 18481390 | 18482328 |
| chr_1 | g11797 | g11797.t1 | exon | g11797.t1.exon4 | 18486711 | 18486758 |
| chr_1 | g11797 | g11797.t1 | cds | g11797.t1.CDS4 | 18486711 | 18486758 |
| chr_1 | g11797 | g11797.t1 | exon | g11797.t1.exon5 | 18486821 | 18486891 |
| chr_1 | g11797 | g11797.t1 | cds | g11797.t1.CDS5 | 18486821 | 18486891 |
| chr_1 | g11797 | g11797.t1 | exon | g11797.t1.exon6 | 18487022 | 18487218 |
| chr_1 | g11797 | g11797.t1 | cds | g11797.t1.CDS6 | 18487022 | 18487218 |
| chr_1 | g11797 | g11797.t1 | TSS | g11797.t1 | NA | NA |
Sequences
>g11797.t1 Gene=g11797 Length=1950
ATGGGCAAAATATTAAAAACAGTTACACAAGCCAGTTTACGAAAAGCAATTGGAGTTGTT
CACCAAGATACAGTCCTTTTCAATCAAAACAATAAATATAATATCAAATATGGACGAATA
AATGCAGATGATTCTGAAGTGATATTAGCAAGTAGAAGTGCAGACATTCATGAGAAAATA
TTAACATTTCCACAACAAACAATATTGAAGTCACCACAAATTGTTTTACTTGATGAAGCA
ACAAGTGCTCTCGATACTTCAACTGAGCACTTTCCACAATCATTCATGCTGGACGAAATT
TTAGTTCTCAAAGATGGAGGCGGTACTGGAAGTATGGGTTTGCTCAATAATTTGAGAACA
TTTCTATGGATAAAAATTCAGCAATATACAACGAGAACAATTGAAATCTCACTTTTTGCA
CATTTACATTCACTTTCATTGAGATGGCATCTAGGAAGAAAAACCGGAGAAGTTTTACGT
GTGATGGACAGAGGAACAGATAGTATCAACAATTTACTCAATTACATATTGTTTTCTATT
GTTCCTACTATTGTGGATATATTGGTTGCTGTTATATTCTTTATGTCATTCTTCAATTGG
ATGTTTGGTTTAATCGTATTTATAACAATGCTACTCTACATATTTCTTACGATTGCAATT
ACGGAATGGAGAACCAAGTTTCAGAGACGAATGAACTTGGCTGATAATGCAACACGTGCA
AGATCTGTAGACTCATTGCTCAACTTTGAAACTGTCAAATATTACGGTCAAGAAGCATAT
GAAGTACAATGCTATCAAGATGCAATTTTAGATTATCAAAAAGAAGAATTTCAATCAATG
TTTACACTCAATTTGCTCAACACAGCTCAAAATGTTATCGTTTGTGTTGGTTTGCTTGGT
GGATCACTTCTTTGTGCTTATTTGGTTGCTTATGGAAAAGATGGTGAAAAATTGACTGTT
GGTGATTATGTTCTTTTTGCCACATATATTATCCAATTATATGTGCCATTAAATTGGTTT
GGCACATACTATAGACAGATTCAGAAAAATTTTGTCGATATGGAAAATATGTTTGAATTA
ATGAAAGAAGAACAAGAAGTGATTGACGCACCTGATGCTCCAGATTTAGTTTGTTCTCGT
GGTGGAATTGATTTTTCAAATGTTACATTCGGATATTCACCTGAAAAAACAATTTTGAAA
AATGTCACTTTCAACGTTAGTCCAGGAAAAACTATTGCCATAGTAGGACCATCAGGAGCG
GGTAAATCAACTATTATGCGATTGTTATTTAGATTTTATGATGTAACAAGTGGAGCAATT
GTAATAGATGGGCAAAATATTAAAACAGTTACACAAGCCAGTTTACGAAAAGCAATTGGA
GTTGTTCCACAAGATACAGTCCTTTTCAATCAAACAATAAAATATAATATCAAATATGGA
CGAATAAATGCAGATGATTCTGAAGTGATATTAGCAAGTAGAAGTGCAGACATTCATGAG
AAAATATTAACATTTCCACAACAGTATGAAACTCAAGTTGGTGAACGTGGTTTGAGATTA
AGTGGAGGTGAAAAGCAGAGAGTTGCAATTGCAAGAACAATATTGAAGTCACCACAAATT
GTTTTACTTGATGAAGCAACAAGTGCTCTCGATACTTCAACTGAGCGTAATATACAGGCA
GCATTGTCGCGTGTTTGTGCAAATAAAACTACTATTATAATCGCTCATAGACTTTCCACA
ATCATTCATGCTGACGAAATTTTAGTTCTCAAAGATGGTGAGATTATAGAGAGGGGTCGA
CATGAGTTCTTGCTTGAAGAAAATGGACTTTATGCAGAAATGTGGAATCAGCAACTAAAA
AATTTGGAAGGCGAAAAATTACGTGATGAAAAAGTTTTTGAGGAAAATTCATCGAGTACA
GCACCATCACATCATAATTATCATCAATAA
>g11797.t1 Gene=g11797 Length=649
MGKILKTVTQASLRKAIGVVHQDTVLFNQNNKYNIKYGRINADDSEVILASRSADIHEKI
LTFPQQTILKSPQIVLLDEATSALDTSTEHFPQSFMLDEILVLKDGGGTGSMGLLNNLRT
FLWIKIQQYTTRTIEISLFAHLHSLSLRWHLGRKTGEVLRVMDRGTDSINNLLNYILFSI
VPTIVDILVAVIFFMSFFNWMFGLIVFITMLLYIFLTIAITEWRTKFQRRMNLADNATRA
RSVDSLLNFETVKYYGQEAYEVQCYQDAILDYQKEEFQSMFTLNLLNTAQNVIVCVGLLG
GSLLCAYLVAYGKDGEKLTVGDYVLFATYIIQLYVPLNWFGTYYRQIQKNFVDMENMFEL
MKEEQEVIDAPDAPDLVCSRGGIDFSNVTFGYSPEKTILKNVTFNVSPGKTIAIVGPSGA
GKSTIMRLLFRFYDVTSGAIVIDGQNIKTVTQASLRKAIGVVPQDTVLFNQTIKYNIKYG
RINADDSEVILASRSADIHEKILTFPQQYETQVGERGLRLSGGEKQRVAIARTILKSPQI
VLLDEATSALDTSTERNIQAALSRVCANKTTIIIAHRLSTIIHADEILVLKDGEIIERGR
HEFLLEENGLYAEMWNQQLKNLEGEKLRDEKVFEENSSSTAPSHHNYHQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 25 | g11797.t1 | CDD | cd18581 | ABC_6TM_ABCB6 | 75 | 357 | 2.72163E-163 |
| 24 | g11797.t1 | CDD | cd03253 | ABCC_ATM1_transporter | 383 | 618 | 2.56148E-155 |
| 12 | g11797.t1 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 68 | 4.8E-7 |
| 14 | g11797.t1 | Gene3D | G3DSA:1.20.1560.10 | - | 74 | 372 | 1.7E-100 |
| 13 | g11797.t1 | Gene3D | G3DSA:3.40.50.300 | - | 373 | 634 | 1.9E-92 |
| 5 | g11797.t1 | PANTHER | PTHR24221 | ATP-BINDING CASSETTE SUB-FAMILY B | 4 | 66 | 1.5E-202 |
| 8 | g11797.t1 | PANTHER | PTHR24221:SF503 | ATP-BINDING CASSETTE SUB-FAMILY B MEMBER 6, MITOCHONDRIAL | 4 | 66 | 1.5E-202 |
| 3 | g11797.t1 | PANTHER | PTHR24221 | ATP-BINDING CASSETTE SUB-FAMILY B | 67 | 91 | 1.5E-202 |
| 6 | g11797.t1 | PANTHER | PTHR24221:SF503 | ATP-BINDING CASSETTE SUB-FAMILY B MEMBER 6, MITOCHONDRIAL | 67 | 91 | 1.5E-202 |
| 4 | g11797.t1 | PANTHER | PTHR24221 | ATP-BINDING CASSETTE SUB-FAMILY B | 109 | 616 | 1.5E-202 |
| 7 | g11797.t1 | PANTHER | PTHR24221:SF503 | ATP-BINDING CASSETTE SUB-FAMILY B MEMBER 6, MITOCHONDRIAL | 109 | 616 | 1.5E-202 |
| 1 | g11797.t1 | Pfam | PF00664 | ABC transporter transmembrane region | 111 | 336 | 5.8E-36 |
| 2 | g11797.t1 | Pfam | PF00005 | ABC transporter | 399 | 548 | 2.3E-35 |
| 16 | g11797.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 171 | - |
| 22 | g11797.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 172 | 194 | - |
| 19 | g11797.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 195 | 199 | - |
| 20 | g11797.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 200 | 221 | - |
| 17 | g11797.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 222 | 291 | - |
| 21 | g11797.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 292 | 311 | - |
| 18 | g11797.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 312 | 322 | - |
| 23 | g11797.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 323 | 344 | - |
| 15 | g11797.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 345 | 649 | - |
| 30 | g11797.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 520 | 534 | - |
| 32 | g11797.t1 | ProSiteProfiles | PS50929 | ABC transporter integral membrane type-1 fused domain profile. | 112 | 349 | 36.746 |
| 33 | g11797.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 383 | 617 | 23.423 |
| 31 | g11797.t1 | SMART | SM00382 | AAA_5 | 408 | 594 | 1.8E-19 |
| 10 | g11797.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 6 | 107 | 1.05E-15 |
| 9 | g11797.t1 | SUPERFAMILY | SSF90123 | ABC transporter transmembrane region | 111 | 371 | 2.35E-51 |
| 11 | g11797.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 374 | 619 | 9.3E-90 |
| 27 | g11797.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 172 | 194 | - |
| 26 | g11797.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 198 | 220 | - |
| 29 | g11797.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 288 | 310 | - |
| 28 | g11797.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 320 | 342 | - |
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 |
| GO:0016887 | ATP hydrolysis activity | MF |
KEGG
Orthology
- This transcript has been annotated with K05661 (ATP-binding cassette, subfamily B (MDR/TAP), member 6)
Pathway
- This transcript belongs to the following pathways
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.
