General information for g10139.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ABC transporter G family member 20.
Parent gene
- The parent gene g10139 is located on chr_1: 7727468..7728453 (- 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 | g10139 | g10139.t1 | isoform | g10139.t1 | 7725934 | 7728453 |
| chr_1 | g10139 | g10139.t1 | exon | g10139.t1.exon1 | 7725934 | 7726147 |
| chr_1 | g10139 | g10139.t1 | cds | g10139.t1.CDS1 | 7725934 | 7726147 |
| chr_1 | g10139 | g10139.t1 | exon | g10139.t1.exon2 | 7726319 | 7726681 |
| chr_1 | g10139 | g10139.t1 | cds | g10139.t1.CDS2 | 7726319 | 7726681 |
| chr_1 | g10139 | g10139.t1 | exon | g10139.t1.exon3 | 7726739 | 7727326 |
| chr_1 | g10139 | g10139.t1 | cds | g10139.t1.CDS3 | 7726739 | 7727326 |
| chr_1 | g10139 | g10139.t1 | exon | g10139.t1.exon4 | 7727468 | 7728289 |
| chr_1 | g10139 | g10139.t1 | cds | g10139.t1.CDS4 | 7727468 | 7728289 |
| chr_1 | g10139 | g10139.t1 | exon | g10139.t1.exon5 | 7728350 | 7728453 |
| chr_1 | g10139 | g10139.t1 | cds | g10139.t1.CDS5 | 7728350 | 7728453 |
| chr_1 | g10139 | g10139.t1 | TSS | g10139.t1 | NA | NA |
| chr_1 | g10139 | g10139.t1 | TTS | g10139.t1 | NA | NA |
Sequences
>g10139.t1 Gene=g10139 Length=2091
ATGAATAGCGTTGAAGTCAGAAATGTTCATAAAAGCTATGGAAATAAAAAAGATAAAAGA
GCTGTTTTGAATGGACTGAATTTATCTGTGGCTCATAGTTCAATTTATGCTTTAATTGGA
GCTTCGGGATGCGGTAAAACAACTTTGTTGTCATGTATTTTGGGAATGAAAGAACTCGAT
TCTGGGACAATAAAAGTGTTAAGACACAAAGTAAATCATGATAAAACATCAAAAGTTGGT
CATTTAATTGGATTCATGCCTCAAAATTCAGCTTTAATTGGTGAACTTACAATTCGTGAG
ACATTAAATTATTTTGGTAGCATTTTTCTTATGAGTAAAAAGAATTTAGAAGAAAGGTCA
CAAATGATAAAAGAATTGCTTGAACTACCGCCTGATGATAGGTTAATTGAAAATTTATCA
GGTGGTCAAAGAAGAAGAGTGTCATTAGCAGCAGCAATCATTCATAATCCTCAAATTTTA
ATTCTTGATGAACCTACAGTCGGTGTTGATTCAATACTTCGTGACAAGATTTGGAAATTT
TTAATCAAATCAACACGCAAAAGCAATTTATCAATTATCATCACAACTCACTATATTTCT
GAAGCACAACAGTCAGATAGATGTGGAATGATGAGAGATGGAATTTTATTAGCCGAAGAT
GCACCAAAAAATATTTTAACAAAATACAATGCCAAAGACCTTGATGAGGCTTTTCTCAAT
CTTTGTTTGTTGAAACAAAAAGTGCCAGATGAATTTGAATGTATTACTGATACTGCTGAA
TTAATCATTGATGAAAAACCTTTGGACAATGAAATTGAAAGTAAATGTGATTCTTTGCTG
CCCTTTGAAAAGAGAAAGAAATTTAATTTACAAACAATTGATGCACTTTCTAAGAAGGAA
TATATAAGAATGAAACGACAATATGCTGAGGTATTTTTCATACTTATTCTACCAATTTTA
CAAATTCTTGGACTAGCATATGCTATTGGTGGCTTACCGAAAGGTCTTAAAATAGGAATT
ATTAACAATGAAGTTTTAAATTCATCAATTTGTAATCAATACCTTAACTTCAATGACTCA
TATCTAAACGAAAATTATGAATGCATTTTTAACCATGTGTCTTGTCACTTACTCAATGAA
ATCAATGACAAAGACATTACAAAGGTTTATTACGATGACTTTGAAAAAGCTTTTTTGGAT
GCGAAAAAAGGAAATATAATTGGAGTGTTAACAATAAATCAAAATATTTCAAATATTCTC
ACGAAAATGTTCAAAGATGGTAATTTGAAAATAACTGAAAGCCTTATTGGTATAAGTCTA
GACCAAAGTGATCTACAGCTCACAACTTTCATGCAAAGTAAACTTTATCAAGCGTATGAA
AGATTTAATAAAAAATTAATGAAAAGTTGTGAATTCAGTGAGAAACTTTTAAGCATTCCA
ATGAATTTTGAAACTTTTTATGCATCAATTGACTCTGATTTTAAAACTACAATTTTTCCT
GCTGTTATTTTACAGATCATCATGTTTTCATCAATGGGCTACACATGCTTTGCTATAGCG
CAAAGTAGAATTGATGGTGTTTGGAACAGAACTTTATTAGCTGGTGTTCGACCTATCGAA
ATTCTTTTCACACAAATATTTGTCTGTTTTTTTGTAATAATTATCTCATTAGTTGAAATT
GGAATTACATCGTATTTTACACTTGATGTACCAATTAGAGGAAGTTTAATTTTATTGACA
ATTTTTGGAATTCTTGCTTGCTTTACTGGATCAATAACAGGAATTGCTATGTCTGTACTG
ACTGATAATTTGCATGCAATTTCAATAATATCATTAGCTATTGTACAAGGCACTTCAACT
TTATCTGGTGGATATTGGCCTTTAGAAGCACAACCAACATTATTGAAATATATTTCGTTG
GCTCTTCCAGTAACGATACCATCATTTTCTGTTCGTAACATTGCAGTTCGAGGACTTGGA
CTAGAAGATCCAATTGTTCAATATGGGTTTGTGGTGTGCATAATATGGATAGCATTTAGC
TTGATCTTTGCTTATTATGCTATTAATAAAAGAAGATTTTCTAGCAAATAA
>g10139.t1 Gene=g10139 Length=696
MNSVEVRNVHKSYGNKKDKRAVLNGLNLSVAHSSIYALIGASGCGKTTLLSCILGMKELD
SGTIKVLRHKVNHDKTSKVGHLIGFMPQNSALIGELTIRETLNYFGSIFLMSKKNLEERS
QMIKELLELPPDDRLIENLSGGQRRRVSLAAAIIHNPQILILDEPTVGVDSILRDKIWKF
LIKSTRKSNLSIIITTHYISEAQQSDRCGMMRDGILLAEDAPKNILTKYNAKDLDEAFLN
LCLLKQKVPDEFECITDTAELIIDEKPLDNEIESKCDSLLPFEKRKKFNLQTIDALSKKE
YIRMKRQYAEVFFILILPILQILGLAYAIGGLPKGLKIGIINNEVLNSSICNQYLNFNDS
YLNENYECIFNHVSCHLLNEINDKDITKVYYDDFEKAFLDAKKGNIIGVLTINQNISNIL
TKMFKDGNLKITESLIGISLDQSDLQLTTFMQSKLYQAYERFNKKLMKSCEFSEKLLSIP
MNFETFYASIDSDFKTTIFPAVILQIIMFSSMGYTCFAIAQSRIDGVWNRTLLAGVRPIE
ILFTQIFVCFFVIIISLVEIGITSYFTLDVPIRGSLILLTIFGILACFTGSITGIAMSVL
TDNLHAISIISLAIVQGTSTLSGGYWPLEAQPTLLKYISLALPVTIPSFSVRNIAVRGLG
LEDPIVQYGFVVCIIWIAFSLIFAYYAINKRRFSSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g10139.t1 | CDD | cd03230 | ABC_DR_subfamily_A | 4 | 216 | 6.44587E-54 |
| 6 | g10139.t1 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 248 | 4.9E-60 |
| 3 | g10139.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 1 | 690 | 5.8E-179 |
| 4 | g10139.t1 | PANTHER | PTHR43038:SF2 | RH61964P | 1 | 690 | 5.8E-179 |
| 2 | g10139.t1 | Pfam | PF00005 | ABC transporter | 23 | 166 | 1.5E-30 |
| 1 | g10139.t1 | Pfam | PF12698 | ABC-2 family transporter protein | 311 | 683 | 4.2E-20 |
| 10 | g10139.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 307 | - |
| 16 | g10139.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 308 | 329 | - |
| 12 | g10139.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 330 | 497 | - |
| 19 | g10139.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 498 | 520 | - |
| 8 | g10139.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 521 | 540 | - |
| 17 | g10139.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 541 | 566 | - |
| 13 | g10139.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 567 | 571 | - |
| 18 | g10139.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 572 | 597 | - |
| 9 | g10139.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 598 | 603 | - |
| 15 | g10139.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 604 | 626 | - |
| 11 | g10139.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 627 | 664 | - |
| 14 | g10139.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 665 | 688 | - |
| 7 | g10139.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 689 | 696 | - |
| 27 | g10139.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 139 | 153 | - |
| 29 | g10139.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 4 | 238 | 20.322 |
| 28 | g10139.t1 | SMART | SM00382 | AAA_5 | 32 | 222 | 1.1E-8 |
| 5 | g10139.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 4 | 229 | 2.21E-52 |
| 23 | g10139.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 308 | 330 | - |
| 26 | g10139.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 498 | 520 | - |
| 22 | g10139.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 541 | 563 | - |
| 24 | g10139.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 578 | 600 | - |
| 21 | g10139.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 607 | 626 | - |
| 25 | g10139.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 665 | 687 | - |
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 K01990 (ABC-2 type transport system ATP-binding protein)
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.
