General information for g1116.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 g1116 is located on chr_3: 8280636..8283109 (- 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_3 | g1116 | g1116.t1 | isoform | g1116.t1 | 8280636 | 8283109 |
| chr_3 | g1116 | g1116.t1 | exon | g1116.t1.exon1 | 8280636 | 8281020 |
| chr_3 | g1116 | g1116.t1 | cds | g1116.t1.CDS1 | 8280636 | 8281020 |
| chr_3 | g1116 | g1116.t1 | exon | g1116.t1.exon2 | 8281357 | 8281696 |
| chr_3 | g1116 | g1116.t1 | cds | g1116.t1.CDS2 | 8281357 | 8281696 |
| chr_3 | g1116 | g1116.t1 | exon | g1116.t1.exon3 | 8281867 | 8283109 |
| chr_3 | g1116 | g1116.t1 | cds | g1116.t1.CDS3 | 8281867 | 8283109 |
| chr_3 | g1116 | g1116.t1 | TSS | g1116.t1 | 8283911 | 8283911 |
| chr_3 | g1116 | g1116.t1 | TTS | g1116.t1 | NA | NA |
Sequences
>g1116.t1 Gene=g1116 Length=1968
ATGCTTGATAGAGATAATGACAATGTTTCACCACTGGTTGATAAAGATAAGAAAAAAGAC
AATCAATCAACTTTTAAAAATGCTTACAAGAAAATGAAAACACTTTTTCCATTTCTTTGG
CCAAAAAAGAATTTTTTGCTACAATTTCGTGTGATTTTTTGCTTTTTCCTTTTAATTGCT
GGACGTGCAATAAATCTTTATGTTCCAATATACAATAAGAGAATTGTCGACTCATTGTCA
GAAAATGAACCAACATTTCGGTGGGAATGGATTTGCATTTATGTTGGTTTCAAGTTTCTT
CAAGGAGGTGGGGCTGGTTCAATGGGGCTATTGAATAATTTGAGAACATTTTTATGGATT
GACATTCAACAATTTACAAATTTAGAAATTCAAGTGAGTCTTTTTAAGCATCTTCATTCT
TTATCATTGCGATGGCATCTAGGGAGAAAAACAGGTGAAGTCTTAAGGATAATGGATAGA
GGAACTGAAAGTATCAATAATTTACTCAATTATATTCTATTTTCAATTGTTCCAACACTT
GCTGATATTCTTATTGCGGTGATATTTTTCATGTCTTATTTCAATTGGATTTTTGGTTTT
ATTGTTTTGGTCACAATGTCGCTTTATATTTATCTAACAATTGCAATTACTGAATGGAGA
ACAAAATTTCAAAGACGAATGAATTTAGCCGATAATGCAACAAGAGCAAAATCAGTTGAT
TCATTGCTTAATTTTGAAACTGTTAAATATTATGGACAAGAGGATTATGAAGTTAAATGT
TATAAAGAAGCAATTTTAAAATTTCAAAAAGAAGAATTTCAATCAATGTTGACATTAAAT
TTATTAAATACAGCTCAAAATGTTCTTGTTTGTGCTGGTTTACTTGCTGGATCACTTTTA
TGTGCATACCTTGTTGTTTATGGCAATAATGGTGAGAAATTGACAGTTGGTGATTATGTG
CTGTTTGCAAGTTATATAATTCAACTTTATGTGCCACTCAATTGGTTTGGAACTTATTAT
CGAACGATACAGAAGAATTTCGTTGATATGGAAAATATGTTGGATTTAATGAAAGAAAAG
CAAGAAATTGTTGATGATGTCAATGCTAAAAGTTTGGTCTGCATTGGTGGTGGAATTGAT
TTTAAAGAAGTTAATTTTGGTTATGCACCAGAAAAGACAATTTTGAAAAATATTTCATTT
AGTGTTGGCTCTGGAAAGACCATTGCGATTGTTGGACCTTCTGGTGCCGGTAAAAGCACA
ATAATGAGACTTCTCTTTAGATTCTATGACATTGAAAATGGTGCAATTATAATTGATGGG
CAAAATATTAAAGCTGTCACACAAGCAAGTTTAAGAAAGGCAATTGGAGTTGTGCCTCAG
GATACAGTTTTGTTTAATGAAACAATCAAGTATAACATTAAATATGGTCGAATTGATGCT
GAAGATTCTGAAGTAATTCTTGCAAGTCGAAGTGCTGACATTCATGATAAAATTATGTCA
TTTCCTCAACAATATGAGACAGTTGTTGGTGAACGAGGTTTACGATTAAGTGGTGGTGAA
AAGCAAAGAGTTGCAATTGCAAGAACAATTCTAAAATCACCGCAAATTTTGCTTCTTGAT
GAAAGTACATCAGCATTAGACACAAATACAGAAAGAAATATTCAATCAGCATTATCAAAA
GTTTGTGCAAATAAAACAACAATAATAATTGCTCATCGACTTTCAACAATAATTCATGCT
GATGAAATTTTAGTGCTTAAAGATGGTGAAATAGTTGAAAGAGGACAACATGAAAAATTA
CTAGAACAAAATGGACTTTATGCTGAAATGTGGAATCAACAACTGAATAATTTAGAAGGT
GAAAAAATTCGTGATGAAAAAAATTTAGAAAAGGAGAAAAAAGAGGAAGAAAATTTAGCA
GTTCGTGCTATGCCACCACATCATCATCACCATCACCATCATCATTAA
>g1116.t1 Gene=g1116 Length=655
MLDRDNDNVSPLVDKDKKKDNQSTFKNAYKKMKTLFPFLWPKKNFLLQFRVIFCFFLLIA
GRAINLYVPIYNKRIVDSLSENEPTFRWEWICIYVGFKFLQGGGAGSMGLLNNLRTFLWI
DIQQFTNLEIQVSLFKHLHSLSLRWHLGRKTGEVLRIMDRGTESINNLLNYILFSIVPTL
ADILIAVIFFMSYFNWIFGFIVLVTMSLYIYLTIAITEWRTKFQRRMNLADNATRAKSVD
SLLNFETVKYYGQEDYEVKCYKEAILKFQKEEFQSMLTLNLLNTAQNVLVCAGLLAGSLL
CAYLVVYGNNGEKLTVGDYVLFASYIIQLYVPLNWFGTYYRTIQKNFVDMENMLDLMKEK
QEIVDDVNAKSLVCIGGGIDFKEVNFGYAPEKTILKNISFSVGSGKTIAIVGPSGAGKST
IMRLLFRFYDIENGAIIIDGQNIKAVTQASLRKAIGVVPQDTVLFNETIKYNIKYGRIDA
EDSEVILASRSADIHDKIMSFPQQYETVVGERGLRLSGGEKQRVAIARTILKSPQILLLD
ESTSALDTNTERNIQSALSKVCANKTTIIIAHRLSTIIHADEILVLKDGEIVERGQHEKL
LEQNGLYAEMWNQQLNNLEGEKIRDEKNLEKEKKEEENLAVRAMPPHHHHHHHHH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 23 | g1116.t1 | CDD | cd18581 | ABC_6TM_ABCB6 | 54 | 353 | 0.0 |
| 22 | g1116.t1 | CDD | cd03253 | ABCC_ATM1_transporter | 379 | 614 | 2.03886E-153 |
| 10 | g1116.t1 | Coils | Coil | Coil | 350 | 370 | - |
| 9 | g1116.t1 | Coils | Coil | Coil | 608 | 635 | - |
| 8 | g1116.t1 | Gene3D | G3DSA:1.20.1560.10 | - | 38 | 368 | 6.1E-114 |
| 7 | g1116.t1 | Gene3D | G3DSA:3.40.50.300 | - | 371 | 632 | 1.0E-90 |
| 31 | g1116.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 630 | 655 | - |
| 32 | g1116.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 630 | 644 | - |
| 3 | g1116.t1 | PANTHER | PTHR24221 | ATP-BINDING CASSETTE SUB-FAMILY B | 17 | 612 | 1.6E-182 |
| 4 | g1116.t1 | PANTHER | PTHR24221:SF503 | ATP-BINDING CASSETTE SUB-FAMILY B MEMBER 6, MITOCHONDRIAL | 17 | 612 | 1.6E-182 |
| 1 | g1116.t1 | Pfam | PF00664 | ABC transporter transmembrane region | 51 | 332 | 1.7E-37 |
| 2 | g1116.t1 | Pfam | PF00005 | ABC transporter | 395 | 544 | 7.8E-35 |
| 14 | g1116.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 44 | - |
| 17 | g1116.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 45 | 64 | - |
| 13 | g1116.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 65 | 167 | - |
| 20 | g1116.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 168 | 190 | - |
| 15 | g1116.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 191 | 195 | - |
| 21 | g1116.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 196 | 217 | - |
| 12 | g1116.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 218 | 287 | - |
| 18 | g1116.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 288 | 307 | - |
| 16 | g1116.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 308 | 318 | - |
| 19 | g1116.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 319 | 340 | - |
| 11 | g1116.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 341 | 655 | - |
| 30 | g1116.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 516 | 530 | - |
| 33 | g1116.t1 | ProSiteProfiles | PS50929 | ABC transporter integral membrane type-1 fused domain profile. | 52 | 345 | 39.171 |
| 34 | g1116.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 379 | 613 | 23.303 |
| 29 | g1116.t1 | SMART | SM00382 | AAA_5 | 404 | 590 | 3.5E-18 |
| 5 | g1116.t1 | SUPERFAMILY | SSF90123 | ABC transporter transmembrane region | 31 | 360 | 1.7E-55 |
| 6 | g1116.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 371 | 614 | 8.37E-90 |
| 26 | g1116.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 46 | 68 | - |
| 24 | g1116.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 168 | 190 | - |
| 28 | g1116.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 194 | 216 | - |
| 27 | g1116.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 287 | 306 | - |
| 25 | g1116.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 321 | 343 | - |
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. There were no conditions that were differentially expressed