General information for g16549.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ABC transporter G family member 23.
Parent gene
- The parent gene g16549 is located on chr_4: 9898317..9900901 (- 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_4 | g16549 | g16549.t1 | isoform | g16549.t1 | 9898317 | 9900901 |
| chr_4 | g16549 | g16549.t1 | exon | g16549.t1.exon1 | 9898317 | 9898530 |
| chr_4 | g16549 | g16549.t1 | cds | g16549.t1.CDS1 | 9898317 | 9898530 |
| chr_4 | g16549 | g16549.t1 | exon | g16549.t1.exon2 | 9898944 | 9899306 |
| chr_4 | g16549 | g16549.t1 | cds | g16549.t1.CDS2 | 9898944 | 9899306 |
| chr_4 | g16549 | g16549.t1 | exon | g16549.t1.exon3 | 9899385 | 9899921 |
| chr_4 | g16549 | g16549.t1 | cds | g16549.t1.CDS3 | 9899385 | 9899921 |
| chr_4 | g16549 | g16549.t1 | exon | g16549.t1.exon4 | 9899984 | 9900754 |
| chr_4 | g16549 | g16549.t1 | cds | g16549.t1.CDS4 | 9899984 | 9900754 |
| chr_4 | g16549 | g16549.t1 | exon | g16549.t1.exon5 | 9900810 | 9900901 |
| chr_4 | g16549 | g16549.t1 | cds | g16549.t1.CDS5 | 9900810 | 9900901 |
| chr_4 | g16549 | g16549.t1 | TSS | g16549.t1 | NA | NA |
| chr_4 | g16549 | g16549.t1 | TTS | g16549.t1 | NA | NA |
Sequences
>g16549.t1 Gene=g16549 Length=1977
ATGAAATGCATTGAAATTAAAAGTCTTTGTAAAAATTACAATAATGAAAAAATTTTAAAT
GATGTCAATTTATCAATTGAGTGTGGAACAATATATTCATTAATTGGACCTTCAGGTTGT
GGTAAAACAACTCTCATTAGTTGTCTGCTTGGCATGCAAAAATTTCATTCTGGTGGAATT
CGAATTTTTAATCATCAAGTTGAATTTGAAAATACAACAAAATTTGCTCATCTCATTGGT
TTTATGCCACAAACAATTTCATTAGCTTCAAATTTATCAGTGAAGGAAATTTTAAAATAT
TTTGCAAATCTTCATCAATTAGAAAATGAAAAATTTGATAAAAGTTTTGAAAATGTCAGA
AAAATGTTGGAATTGCCTTCGGATGATTCAATAATTCAAGAACTTTCAGGTGGTGAACAA
CGAAGAGTTTCTTTAGCTGTCGCAATAATTCACAATCCAAAAATTTTAATTCTTGATGAA
CCAACTGTTGGACTTGACATTTTACTGTGTGATCGAATTTGGAAGTTTTTGAAAAAACAA
ACAGAAGAAAAACATTTTACAGTATTTATGACAACACATTATTTAAATGAAGCAGCAAAA
GCTGATCGTTGTGGTTTCATGAGAAATGGATTTATCATTGTTGAAGACAATGCAAGTAAA
ATTACAAGAAATTTAAATGTTTCAAGTTTAGATGAAGCTTTTTTGATGATTTGTCAAAAA
AAAGAAATTTTAAGAATTTGTGACAAACAAGAAATTAATGTTAATGAAGAGAAATTTGAA
ATTCATGAAGATAAAAAATGGATTAGACTAAAAGTCATAATTGGTTTGATAGCATTTGAA
ATTCATCGATTGAAAAGACAGCCAGTTGAAATTTTCTGGATATTTTTTGCTATAATTTTT
CAATACTGTGTTTTTAGCAATGTCATCGGAACAATTCCATCAAATTTCAAACTTGGTGTT
GTCAAATCAAATTATTACAACTGCAATTCAACAGAAATTATTTTTTGCAATGAAAGTGAA
ATTTTTTGTGAATTTTTCAATCAAATTGATGGAATTGAAATGATAAACTATGGAAATTAT
GAAAAATCTTATGATGATTTTAAGAAAAGTGAAATATTTGGAATTATAAAAATTCCTGAA
AATTTTACAAATTTAATAATTGAAAATGAAGAAAATTTAACAATACCGTTTGAAATTTTG
CTTGATAATTCAAAATTTCCACTTTTATTATTTATGCAACAAAAACTTCAAAAAGCATTT
CAGAAATCTATTGAAAATTTATCAAAAACTTGCAATATAAAAAATAATTTGCTTATAAAA
CCAATCAAAATTGAGGAAGAAATGTTTGCACCATTAACATTTGAAACAAAAAATTATCAA
TCTGTCATCAATGCTGTTTTAATGCCATTTCCAGCAATTGTTTTATTTTCATCTTTAACA
TTCACTCAAAGTCGTCGTGAAGGTGTTTGGAATCGAACAATTTTAAGTGGAGTTAAAATT
ACTGAAATTATCATTGCAAATTTAATTGAATGTTTAATCATAGCAGCAGCTTATTCAGTT
CAAATTATTTTTTCACTAAAAGTCTTGATTGAAATTGAAATTATTGGAAATTTAGGATTG
ACTTTGTTCATTATATTTATTAATATCATTGTTGGATTTCTTTTTGGATTTATTATTGCA
ATTTTTTATAGTAAATTTGAAATTGCTGTTGGAATGGCGAGTTTAATAACTTTTATTATT
ATTCCTACTTCAGGAATTCTTTGGCCTCTTGAAGGAGCTTCACCGATTATTAAACCGTTC
TGTTATGCTTTACCTTTATCAATGGTGGGAGAATCACTAAGAAACGTTATTTTGAAAGGA
TTAGAAATACAACATCCATTAGTTTACAAAGGAATTTTATCATCAGGATTGTGGATTATT
TTAAGCTTATTTTTATCTTTTTTTGGACTAAAATTTAAGAAATTTTCAACAGAATAA
>g16549.t1 Gene=g16549 Length=658
MKCIEIKSLCKNYNNEKILNDVNLSIECGTIYSLIGPSGCGKTTLISCLLGMQKFHSGGI
RIFNHQVEFENTTKFAHLIGFMPQTISLASNLSVKEILKYFANLHQLENEKFDKSFENVR
KMLELPSDDSIIQELSGGEQRRVSLAVAIIHNPKILILDEPTVGLDILLCDRIWKFLKKQ
TEEKHFTVFMTTHYLNEAAKADRCGFMRNGFIIVEDNASKITRNLNVSSLDEAFLMICQK
KEILRICDKQEINVNEEKFEIHEDKKWIRLKVIIGLIAFEIHRLKRQPVEIFWIFFAIIF
QYCVFSNVIGTIPSNFKLGVVKSNYYNCNSTEIIFCNESEIFCEFFNQIDGIEMINYGNY
EKSYDDFKKSEIFGIIKIPENFTNLIIENEENLTIPFEILLDNSKFPLLLFMQQKLQKAF
QKSIENLSKTCNIKNNLLIKPIKIEEEMFAPLTFETKNYQSVINAVLMPFPAIVLFSSLT
FTQSRREGVWNRTILSGVKITEIIIANLIECLIIAAAYSVQIIFSLKVLIEIEIIGNLGL
TLFIIFINIIVGFLFGFIIAIFYSKFEIAVGMASLITFIIIPTSGILWPLEGASPIIKPF
CYALPLSMVGESLRNVILKGLEIQHPLVYKGILSSGLWIILSLFLSFFGLKFKKFSTE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 24 | g16549.t1 | CDD | cd03230 | ABC_DR_subfamily_A | 4 | 212 | 4.47167E-54 |
| 8 | g16549.t1 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 244 | 7.1E-57 |
| 4 | g16549.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 1 | 245 | 1.6E-117 |
| 6 | g16549.t1 | PANTHER | PTHR43038:SF2 | RH61964P | 1 | 245 | 1.6E-117 |
| 3 | g16549.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 269 | 654 | 1.6E-117 |
| 5 | g16549.t1 | PANTHER | PTHR43038:SF2 | RH61964P | 269 | 654 | 1.6E-117 |
| 2 | g16549.t1 | Pfam | PF00005 | ABC transporter | 19 | 162 | 3.5E-30 |
| 1 | g16549.t1 | Pfam | PF12698 | ABC-2 family transporter protein | 294 | 646 | 7.5E-15 |
| 16 | g16549.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 290 | - |
| 23 | g16549.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 291 | 312 | - |
| 11 | g16549.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 313 | 461 | - |
| 18 | g16549.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 462 | 483 | - |
| 13 | g16549.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 484 | 502 | - |
| 17 | g16549.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 503 | 526 | - |
| 12 | g16549.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 527 | 537 | - |
| 20 | g16549.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 538 | 562 | - |
| 15 | g16549.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 563 | 567 | - |
| 22 | g16549.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 568 | 588 | - |
| 10 | g16549.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 589 | 599 | - |
| 19 | g16549.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 600 | 621 | - |
| 14 | g16549.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 622 | 626 | - |
| 21 | g16549.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 627 | 650 | - |
| 9 | g16549.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 651 | 658 | - |
| 31 | g16549.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 135 | 149 | - |
| 33 | g16549.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 4 | 234 | 19.701 |
| 32 | g16549.t1 | SMART | SM00382 | AAA_5 | 28 | 211 | 9.2E-10 |
| 7 | g16549.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 4 | 226 | 6.39E-54 |
| 27 | g16549.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 291 | 313 | - |
| 26 | g16549.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 459 | 481 | - |
| 25 | g16549.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 502 | 524 | - |
| 29 | g16549.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 539 | 561 | - |
| 28 | g16549.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 568 | 590 | - |
| 30 | g16549.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 628 | 650 | - |
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:0016887 | ATP hydrolysis activity | MF |
KEGG
Orthology
- This transcript has been annotated with K17240 (inositol-phosphate transport system ATP-binding protein)
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