General information for g10139.t2
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.t2 | isoform | g10139.t2 | 7727468 | 7728453 |
| chr_1 | g10139 | g10139.t2 | exon | g10139.t2.exon1 | 7727468 | 7728289 |
| chr_1 | g10139 | g10139.t2 | cds | g10139.t2.CDS1 | 7727470 | 7728289 |
| chr_1 | g10139 | g10139.t2 | exon | g10139.t2.exon2 | 7728350 | 7728453 |
| chr_1 | g10139 | g10139.t2 | cds | g10139.t2.CDS2 | 7728350 | 7728453 |
| chr_1 | g10139 | g10139.t2 | TSS | g10139.t2 | NA | NA |
| chr_1 | g10139 | g10139.t2 | TTS | g10139.t2 | NA | NA |
Sequences
>g10139.t2 Gene=g10139 Length=926
ATGAATAGCGTTGAAGTCAGAAATGTTCATAAAAGCTATGGAAATAAAAAAGATAAAAGA
GCTGTTTTGAATGGACTGAATTTATCTGTGGCTCATAGTTCAATTTATGCTTTAATTGGA
GCTTCGGGATGCGGTAAAACAACTTTGTTGTCATGTATTTTGGGAATGAAAGAACTCGAT
TCTGGGACAATAAAAGTGTTAAGACACAAAGTAAATCATGATAAAACATCAAAAGTTGGT
CATTTAATTGGATTCATGCCTCAAAATTCAGCTTTAATTGGTGAACTTACAATTCGTGAG
ACATTAAATTATTTTGGTAGCATTTTTCTTATGAGTAAAAAGAATTTAGAAGAAAGGTCA
CAAATGATAAAAGAATTGCTTGAACTACCGCCTGATGATAGGTTAATTGAAAATTTATCA
GGTGGTCAAAGAAGAAGAGTGTCATTAGCAGCAGCAATCATTCATAATCCTCAAATTTTA
ATTCTTGATGAACCTACAGTCGGTGTTGATTCAATACTTCGTGACAAGATTTGGAAATTT
TTAATCAAATCAACACGCAAAAGCAATTTATCAATTATCATCACAACTCACTATATTTCT
GAAGCACAACAGTCAGATAGATGTGGAATGATGAGAGATGGAATTTTATTAGCCGAAGAT
GCACCAAAAAATATTTTAACAAAATACAATGCCAAAGACCTTGATGAGGCTTTTCTCAAT
CTTTGTTTGTTGAAACAAAAAGTGCCAGATGAATTTGAATGTATTACTGATACTGCTGAA
TTAATCATTGATGAAAAACCTTTGGACAATGAAATTGAAAGTAAATGTGATTCTTTGCTG
CCCTTTGAAAAGAGAAAGAAATTTAATTTACAAACAATTGATGCACTTTCTAAGAAGGAA
TATATAAGAATGAAACGACAATATGC
>g10139.t2 Gene=g10139 Length=308
MNSVEVRNVHKSYGNKKDKRAVLNGLNLSVAHSSIYALIGASGCGKTTLLSCILGMKELD
SGTIKVLRHKVNHDKTSKVGHLIGFMPQNSALIGELTIRETLNYFGSIFLMSKKNLEERS
QMIKELLELPPDDRLIENLSGGQRRRVSLAAAIIHNPQILILDEPTVGVDSILRDKIWKF
LIKSTRKSNLSIIITTHYISEAQQSDRCGMMRDGILLAEDAPKNILTKYNAKDLDEAFLN
LCLLKQKVPDEFECITDTAELIIDEKPLDNEIESKCDSLLPFEKRKKFNLQTIDALSKKE
YIRMKRQY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10139.t2 | CDD | cd03230 | ABC_DR_subfamily_A | 4 | 216 | 2.03094E-57 |
| 5 | g10139.t2 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 248 | 5.7E-61 |
| 2 | g10139.t2 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 1 | 257 | 8.6E-101 |
| 3 | g10139.t2 | PANTHER | PTHR43038:SF2 | RH61964P | 1 | 257 | 8.6E-101 |
| 1 | g10139.t2 | Pfam | PF00005 | ABC transporter | 23 | 166 | 2.9E-31 |
| 8 | g10139.t2 | ProSitePatterns | PS00211 | ABC transporters family signature. | 139 | 153 | - |
| 10 | g10139.t2 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 4 | 238 | 20.322 |
| 9 | g10139.t2 | SMART | SM00382 | AAA_5 | 32 | 222 | 1.1E-8 |
| 4 | g10139.t2 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 4 | 230 | 2.66E-53 |
| 7 | g10139.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 43 | - |
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.
