General information for g10140.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ABC transporter G family member 23.
Parent gene
- The parent gene g10140 is located on chr_1: 7732048..7733511 (- 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 | g10140 | g10140.t8 | isoform | g10140.t8 | 7731000 | 7731914 |
| chr_1 | g10140 | g10140.t8 | exon | g10140.t8.exon1 | 7731000 | 7731844 |
| chr_1 | g10140 | g10140.t8 | cds | g10140.t8.CDS1 | 7731022 | 7731783 |
| chr_1 | g10140 | g10140.t8 | exon | g10140.t8.exon2 | 7731912 | 7731914 |
| chr_1 | g10140 | g10140.t8 | TSS | g10140.t8 | 7732067 | 7732067 |
| chr_1 | g10140 | g10140.t8 | TTS | g10140.t8 | NA | NA |
Sequences
>g10140.t8 Gene=g10140 Length=848
AATATATGCTTTAATTGGTGCTTCGGGATGTGGTAAAACAACTTTACTTTCTTGTATTTT
GGGAATGAAAGAACTTGATTCTGGGACAATAAAAGTTTTGGGACATAAAGTTACATCAAA
AAAACAAAATAAAGTTGCACGGTCAATTGGTTTTATGCCACAGGATATTGCACTTTCACC
ACAATTAACAATCGGTGAAACATTAAAATATTTCGGAAATATTTTCCTTATGAGTGAACA
AAAATTAGAAGAAAGATCACATATGATCAAAGAATTGCTTGAACTACCGCCTGATGATAG
ATTAATTGAAAATTTATCAGGTGGTCAAAGAAGAAGAGTGTCATTAGCAGCAGCAATCAT
TCATAATCCTCAAATTTTAATTCTTGATGAACCTACAGTCGGTGTTGATTCAATACTTCG
CGACAAAATTTGGAAATTTTTAATTAAATCAACACGCGAAAGCAATTTATCAATTATCAT
CACAACTCACTATATTTCTGAAGCACAACAGTCAGATAGATGTGGAATGATGAGAGATGG
TGTTCTACTGGCTGAGGATTCACCAAGAAACATTTTGCTAAAATATGAAGCAGATAGCTT
AGATGAAGCATTTTTAAATTTATGCAAATTGAATAAACAAGTTTTGCCAAATTCGCAAAA
TCCAATAGAAGTTGTATGTGATGGATACGTAAAGAATGACATTGGTGCAGGTCAAGAGAA
AATTGATGAATTGTCTCATTTCAAAGGAAAGCTTTTATATTACATTCAAATTATTTCTGC
TTTATTTTCTAAAGAATGGGCATGCTTTAAGCGTGGTAAAATGTAAGTTAATAAAAATTC
ATCAAATC
>g10140.t8 Gene=g10140 Length=253
MKELDSGTIKVLGHKVTSKKQNKVARSIGFMPQDIALSPQLTIGETLKYFGNIFLMSEQK
LEERSHMIKELLELPPDDRLIENLSGGQRRRVSLAAAIIHNPQILILDEPTVGVDSILRD
KIWKFLIKSTRESNLSIIITTHYISEAQQSDRCGMMRDGVLLAEDSPRNILLKYEADSLD
EAFLNLCKLNKQVLPNSQNPIEVVCDGYVKNDIGAGQEKIDELSHFKGKLLYYIQIISAL
FSKEWACFKRGKM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10140.t8 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 193 | 1.2E-40 |
| 2 | g10140.t8 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 2 | 190 | 1.8E-73 |
| 3 | g10140.t8 | PANTHER | PTHR43038:SF2 | RH61964P | 2 | 190 | 1.8E-73 |
| 1 | g10140.t8 | Pfam | PF00005 | ABC transporter | 5 | 111 | 3.6E-18 |
| 5 | g10140.t8 | ProSitePatterns | PS00211 | ABC transporters family signature. | 84 | 98 | - |
| 7 | g10140.t8 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 1 | 183 | 9.444 |
| 4 | g10140.t8 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 4 | 171 | 2.62E-35 |
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 K11072 (spermidine/putrescine 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