General information for g11797.t3
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.t3 | TTS | g11797.t3 | 18480388 | 18480388 |
| chr_1 | g11797 | g11797.t3 | isoform | g11797.t3 | 18480537 | 18482328 |
| chr_1 | g11797 | g11797.t3 | exon | g11797.t3.exon1 | 18480537 | 18480891 |
| chr_1 | g11797 | g11797.t3 | cds | g11797.t3.CDS1 | 18480537 | 18480891 |
| chr_1 | g11797 | g11797.t3 | exon | g11797.t3.exon2 | 18480951 | 18481290 |
| chr_1 | g11797 | g11797.t3 | cds | g11797.t3.CDS2 | 18480951 | 18481290 |
| chr_1 | g11797 | g11797.t3 | exon | g11797.t3.exon3 | 18481390 | 18482328 |
| chr_1 | g11797 | g11797.t3 | cds | g11797.t3.CDS3 | 18481390 | 18482311 |
| chr_1 | g11797 | g11797.t3 | TSS | g11797.t3 | NA | NA |
Sequences
>g11797.t3 Gene=g11797 Length=1634
GAGGCGGTACTGGAAGTATGGGTTTGCTCAATAATTTGAGAACATTTCTATGGATAAAAA
TTCAGCAATATACAACGAGAACAATTGAAATCTCACTTTTTGCACATTTACATTCACTTT
CATTGAGATGGCATCTAGGAAGAAAAACCGGAGAAGTTTTACGTGTGATGGACAGAGGAA
CAGATAGTATCAACAATTTACTCAATTACATATTGTTTTCTATTGTTCCTACTATTGTGG
ATATATTGGTTGCTGTTATATTCTTTATGTCATTCTTCAATTGGATGTTTGGTTTAATCG
TATTTATAACAATGCTACTCTACATATTTCTTACGATTGCAATTACGGAATGGAGAACCA
AGTTTCAGAGACGAATGAACTTGGCTGATAATGCAACACGTGCAAGATCTGTAGACTCAT
TGCTCAACTTTGAAACTGTCAAATATTACGGTCAAGAAGCATATGAAGTACAATGCTATC
AAGATGCAATTTTAGATTATCAAAAAGAAGAATTTCAATCAATGTTTACACTCAATTTGC
TCAACACAGCTCAAAATGTTATCGTTTGTGTTGGTTTGCTTGGTGGATCACTTCTTTGTG
CTTATTTGGTTGCTTATGGAAAAGATGGTGAAAAATTGACTGTTGGTGATTATGTTCTTT
TTGCCACATATATTATCCAATTATATGTGCCATTAAATTGGTTTGGCACATACTATAGAC
AGATTCAGAAAAATTTTGTCGATATGGAAAATATGTTTGAATTAATGAAAGAAGAACAAG
AAGTGATTGACGCACCTGATGCTCCAGATTTAGTTTGTTCTCGTGGTGGAATTGATTTTT
CAAATGTTACATTCGGATATTCACCTGAAAAAACAATTTTGAAAAATGTCACTTTCAACG
TTAGTCCAGGAAAAACTATTGCCATAGTAGGACCATCAGGAGCGGGTAAATCAACTATTA
TGCGATTGTTATTTAGATTTTATGATGTAACAAGTGGAGCAATTGTAATAGATGGGCAAA
ATATTAAAACAGTTACACAAGCCAGTTTACGAAAAGCAATTGGAGTTGTTCCACAAGATA
CAGTCCTTTTCAATCAAACAATAAAATATAATATCAAATATGGACGAATAAATGCAGATG
ATTCTGAAGTGATATTAGCAAGTAGAAGTGCAGACATTCATGAGAAAATATTAACATTTC
CACAACAGTATGAAACTCAAGTTGGTGAACGTGGTTTGAGATTAAGTGGAGGTGAAAAGC
AGAGAGTTGCAATTGCAAGAACAATATTGAAGTCACCACAAATTGTTTTACTTGATGAAG
CAACAAGTGCTCTCGATACTTCAACTGAGCGTAATATACAGGCAGCATTGTCGCGTGTTT
GTGCAAATAAAACTACTATTATAATCGCTCATAGACTTTCCACAATCATTCATGCTGACG
AAATTTTAGTTCTCAAAGATGGTGAGATTATAGAGAGGGGTCGACATGAGTTCTTGCTTG
AAGAAAATGGACTTTATGCAGAAATGTGGAATCAGCAACTAAAAAATTTGGAAGGCGAAA
AATTACGTGATGAAAAAGTTTTTGAGGAAAATTCATCGAGTACAGCACCATCACATCATA
ATTATCATCAATAA
>g11797.t3 Gene=g11797 Length=538
MGLLNNLRTFLWIKIQQYTTRTIEISLFAHLHSLSLRWHLGRKTGEVLRVMDRGTDSINN
LLNYILFSIVPTIVDILVAVIFFMSFFNWMFGLIVFITMLLYIFLTIAITEWRTKFQRRM
NLADNATRARSVDSLLNFETVKYYGQEAYEVQCYQDAILDYQKEEFQSMFTLNLLNTAQN
VIVCVGLLGGSLLCAYLVAYGKDGEKLTVGDYVLFATYIIQLYVPLNWFGTYYRQIQKNF
VDMENMFELMKEEQEVIDAPDAPDLVCSRGGIDFSNVTFGYSPEKTILKNVTFNVSPGKT
IAIVGPSGAGKSTIMRLLFRFYDVTSGAIVIDGQNIKTVTQASLRKAIGVVPQDTVLFNQ
TIKYNIKYGRINADDSEVILASRSADIHEKILTFPQQYETQVGERGLRLSGGEKQRVAIA
RTILKSPQIVLLDEATSALDTSTERNIQAALSRVCANKTTIIIAHRLSTIIHADEILVLK
DGEIIERGRHEFLLEENGLYAEMWNQQLKNLEGEKLRDEKVFEENSSSTAPSHHNYHQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g11797.t3 | CDD | cd18581 | ABC_6TM_ABCB6 | 1 | 246 | 4.19586E-159 |
| 18 | g11797.t3 | CDD | cd03253 | ABCC_ATM1_transporter | 272 | 507 | 2.79799E-157 |
| 8 | g11797.t3 | Gene3D | G3DSA:1.20.1560.10 | - | 1 | 261 | 1.3E-98 |
| 7 | g11797.t3 | Gene3D | G3DSA:3.40.50.300 | - | 262 | 523 | 1.3E-92 |
| 3 | g11797.t3 | PANTHER | PTHR24221 | ATP-BINDING CASSETTE SUB-FAMILY B | 2 | 505 | 3.7E-177 |
| 4 | g11797.t3 | PANTHER | PTHR24221:SF503 | ATP-BINDING CASSETTE SUB-FAMILY B MEMBER 6, MITOCHONDRIAL | 2 | 505 | 3.7E-177 |
| 1 | g11797.t3 | Pfam | PF00664 | ABC transporter transmembrane region | 1 | 225 | 1.7E-35 |
| 2 | g11797.t3 | Pfam | PF00005 | ABC transporter | 288 | 437 | 1.7E-35 |
| 9 | g11797.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 60 | - |
| 17 | g11797.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 61 | 83 | - |
| 13 | g11797.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 84 | 88 | - |
| 15 | g11797.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 89 | 110 | - |
| 10 | g11797.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 111 | 180 | - |
| 16 | g11797.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 181 | 200 | - |
| 12 | g11797.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 201 | 211 | - |
| 14 | g11797.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 212 | 233 | - |
| 11 | g11797.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 234 | 538 | - |
| 24 | g11797.t3 | ProSitePatterns | PS00211 | ABC transporters family signature. | 409 | 423 | - |
| 26 | g11797.t3 | ProSiteProfiles | PS50929 | ABC transporter integral membrane type-1 fused domain profile. | 1 | 238 | 37.697 |
| 27 | g11797.t3 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 272 | 506 | 23.423 |
| 25 | g11797.t3 | SMART | SM00382 | AAA_5 | 297 | 483 | 1.8E-19 |
| 5 | g11797.t3 | SUPERFAMILY | SSF90123 | ABC transporter transmembrane region | 2 | 260 | 8.63E-51 |
| 6 | g11797.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 263 | 508 | 6.06E-90 |
| 23 | g11797.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 61 | 83 | - |
| 20 | g11797.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 87 | 109 | - |
| 22 | g11797.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 177 | 199 | - |
| 21 | g11797.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 209 | 231 | - |
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 K06147 (ATP-binding cassette, subfamily B, bacterial)
Pathway
This gene does not belong to any 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.
