General information for g6968.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable multidrug resistance-associated protein lethal(2)03659.
Parent gene
- The parent gene g6968 is located on chr_2: 20226907..20227366 (+ 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_2 | g6968 | g6968.t3 | isoform | g6968.t3 | 20225268 | 20226935 |
| chr_2 | g6968 | g6968.t3 | exon | g6968.t3.exon1 | 20225268 | 20225364 |
| chr_2 | g6968 | g6968.t3 | cds | g6968.t3.CDS1 | 20225272 | 20225364 |
| chr_2 | g6968 | g6968.t3 | exon | g6968.t3.exon2 | 20225424 | 20225589 |
| chr_2 | g6968 | g6968.t3 | cds | g6968.t3.CDS2 | 20225424 | 20225589 |
| chr_2 | g6968 | g6968.t3 | exon | g6968.t3.exon3 | 20225654 | 20226846 |
| chr_2 | g6968 | g6968.t3 | cds | g6968.t3.CDS3 | 20225654 | 20226846 |
| chr_2 | g6968 | g6968.t3 | exon | g6968.t3.exon4 | 20226909 | 20226935 |
| chr_2 | g6968 | g6968.t3 | cds | g6968.t3.CDS4 | 20226909 | 20226935 |
| chr_2 | g6968 | g6968.t3 | TTS | g6968.t3 | 20226990 | 20226990 |
| chr_2 | g6968 | g6968.t3 | TSS | g6968.t3 | NA | NA |
Sequences
>g6968.t3 Gene=g6968 Length=1483
AAAAATGTTCTTTTTCAACACAAATCCATCGGGTAGAATTCTTAATAGATTTAGTAAAGA
TTTGAATCAAATTGATGAAATGCTGCCATTTACTTTGATTGATGTTTTTCAAATTTTATT
CTCATTTCTTGGAACAATTGGTGTGTTGGCGGTTGTCAATCAATTCTACCTCATTCCGAC
ATTTATTTTATTTTTCATTTTTTATCAAATTCGTCAAGTCTACATAAAAATATCATTGGA
TGTCAAAAGACTAAGCTCAACAACATCATCGCCTGTATTTTCATATCTCAGTGAAACTCT
TACTGGACTTTCAATTATTCGTGCCTATAAACTTGAAGATCAATTAAAAAGTGAATTTTT
TAATCATTTAGACCTCAATACTTCATCACATTACATTTGGTTAGCAATGACTAGAACTTT
TGCATTTTGGCTTGACATGTGCTGCTTCATTTATATTGCGATTGTAATCATAAGCTTTTT
CTTTACCAATAGTACGAGTGGAAATGTTGGTTTAGCTATTACACAAGCAATGTCACTCAC
AAACATGGTACAACTTGGTATGCGACAATCAGCAGTTTTGGAAAATCTCATGACAGCTGT
TGAACGAGTTGTTGAATATCAAACAGTCGACCCAGAGCCTGCTTTCGAGTCAGAAAATGA
TAAGAAACCACCAAAAGAATGGCCTGAGAAAGGTCAAGTGAAATTTGAAAAGTTATCATT
AAGTTATTTCCCCGATATGAAAGAAAAAGTTCTCAAAGAGCTTGAATTTGAAATTAATCC
ACAGGAAAAGATTGGAATTTGTGGTAGAACTGGTGCTGGTAAAAGTTCAATAATCAATGC
TTTATTCAGATTGTCATATTTAGATGGTAAAATAGAAATTGATTTAAGAGACACTGCAAA
AATGGGATTGCATGATTTGAGATCTAAAATTTCAATTATACCACAAGAACCAGTGCTCTT
TTCAAATTCGATGCGTTACAATCTTGATCCATTTAATGAATATTCAGATGAAAAACTATG
GAGTGCACTTGAAGAGGTTAATTTAAAAAAAATGATTAAAGAAACACCAGCTGGTTTAAA
TATGGCCATAGCAGAGGGTGGTACAAATTTATCAGTTGGAGAGCGTCAACTTGTTTGCTT
AGCACGTGCCATTTTGCGAGAGAATAAAATTATTGTCATGGATGAAGCAACAGCAAATGT
AGATTTGGAAACTGATGAATTAATTCAGAAAACAATCAGACAAAAATTTAAAAATTGCAC
TTTGATAATGATCGCACATCGTTTAAATTCTGTTATGGATAGCGATAGAATTTTAGTTAT
GGATGCTGGAAAATGTGTGGAATTTGGATCACCTTATGAACTATTGAATAAAACAGAAGA
ACCGAAATATTTTTATGAAATGCTACAAAATACTGGAAAAGGAAATTTTGAAAGCTTAAA
GAAAATTGCTGAAGAGAATCACTTGATAAAGAAGATGAAATGA
>g6968.t3 Gene=g6968 Length=492
MFFFNTNPSGRILNRFSKDLNQIDEMLPFTLIDVFQILFSFLGTIGVLAVVNQFYLIPTF
ILFFIFYQIRQVYIKISLDVKRLSSTTSSPVFSYLSETLTGLSIIRAYKLEDQLKSEFFN
HLDLNTSSHYIWLAMTRTFAFWLDMCCFIYIAIVIISFFFTNSTSGNVGLAITQAMSLTN
MVQLGMRQSAVLENLMTAVERVVEYQTVDPEPAFESENDKKPPKEWPEKGQVKFEKLSLS
YFPDMKEKVLKELEFEINPQEKIGICGRTGAGKSSIINALFRLSYLDGKIEIDLRDTAKM
GLHDLRSKISIIPQEPVLFSNSMRYNLDPFNEYSDEKLWSALEEVNLKKMIKETPAGLNM
AIAEGGTNLSVGERQLVCLARAILRENKIIVMDEATANVDLETDELIQKTIRQKFKNCTL
IMIAHRLNSVMDSDRILVMDAGKCVEFGSPYELLNKTEEPKYFYEMLQNTGKGNFESLKK
IAEENHLIKKMK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g6968.t3 | CDD | cd18580 | ABC_6TM_ABCC_D2 | 1 | 205 | 1.00462E-83 |
| 15 | g6968.t3 | CDD | cd03244 | ABCC_MRP_domain2 | 230 | 450 | 2.16762E-131 |
| 8 | g6968.t3 | Gene3D | G3DSA:1.20.1560.10 | - | 1 | 213 | 9.2E-26 |
| 7 | g6968.t3 | Gene3D | G3DSA:3.40.50.300 | - | 214 | 469 | 5.6E-84 |
| 3 | g6968.t3 | PANTHER | PTHR24223:SF360 | MULTIDRUG RESISTANCE-ASSOCIATED PROTEIN LETHAL(2)03659-LIKE PROTEIN-RELATED | 1 | 485 | 5.8E-184 |
| 4 | g6968.t3 | PANTHER | PTHR24223 | ATP-BINDING CASSETTE SUB-FAMILY C | 1 | 485 | 5.8E-184 |
| 1 | g6968.t3 | Pfam | PF00664 | ABC transporter transmembrane region | 2 | 177 | 5.3E-22 |
| 2 | g6968.t3 | Pfam | PF00005 | ABC transporter | 250 | 397 | 2.3E-28 |
| 11 | g6968.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 33 | - |
| 13 | g6968.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 34 | 67 | - |
| 9 | g6968.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 68 | 138 | - |
| 12 | g6968.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 139 | 160 | - |
| 10 | g6968.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 161 | 492 | - |
| 18 | g6968.t3 | ProSitePatterns | PS00211 | ABC transporters family signature. | 369 | 383 | - |
| 20 | g6968.t3 | ProSiteProfiles | PS50929 | ABC transporter integral membrane type-1 fused domain profile. | 1 | 194 | 23.37 |
| 21 | g6968.t3 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 232 | 466 | 16.774 |
| 19 | g6968.t3 | SMART | SM00382 | AAA_5 | 259 | 443 | 9.6E-12 |
| 5 | g6968.t3 | SUPERFAMILY | SSF90123 | ABC transporter transmembrane region | 1 | 211 | 4.97E-39 |
| 6 | g6968.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 222 | 465 | 4.1E-68 |
| 16 | g6968.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 45 | 67 | - |
| 17 | g6968.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 139 | 161 | - |
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 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.
