General information for g10958.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ATP-binding cassette sub-family G member 1.
Parent gene
- The parent gene g10958 is located on chr_1: 13023028..13025048 (- 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 | g10958 | g10958.t3 | isoform | g10958.t3 | 13023028 | 13025048 |
| chr_1 | g10958 | g10958.t3 | exon | g10958.t3.exon1 | 13023028 | 13023252 |
| chr_1 | g10958 | g10958.t3 | cds | g10958.t3.CDS1 | 13023028 | 13023252 |
| chr_1 | g10958 | g10958.t3 | exon | g10958.t3.exon2 | 13023322 | 13023566 |
| chr_1 | g10958 | g10958.t3 | cds | g10958.t3.CDS2 | 13023322 | 13023566 |
| chr_1 | g10958 | g10958.t3 | exon | g10958.t3.exon3 | 13023689 | 13023754 |
| chr_1 | g10958 | g10958.t3 | cds | g10958.t3.CDS3 | 13023689 | 13023754 |
| chr_1 | g10958 | g10958.t3 | exon | g10958.t3.exon4 | 13023861 | 13024253 |
| chr_1 | g10958 | g10958.t3 | cds | g10958.t3.CDS4 | 13023861 | 13024008 |
| chr_1 | g10958 | g10958.t3 | exon | g10958.t3.exon5 | 13024888 | 13025048 |
| chr_1 | g10958 | g10958.t3 | TSS | g10958.t3 | 13025048 | 13025048 |
| chr_1 | g10958 | g10958.t3 | TTS | g10958.t3 | NA | NA |
Sequences
>g10958.t3 Gene=g10958 Length=1090
AGTCTTTAAATACATTTTAAATAGAATAGAAGGAAGTTAAAGTAACAGAAGCAAAATTGT
GATAAGAATTTTATTTAATCTTCCAAAAAAAACTATCCAAATTTTTTATTTAGATAGCCA
TTTGCAACAATTTTAATCCATAATAAATAGTGCGAAATAAATTGTTAATTTCAATTTTCG
GGGTTCACATGTGCGCTAAGTAGCCAGTTTCATTGAGAAAAATAAAGTGTGAAGGACGAA
AATGATTGAATAGAGATTAAAAATAACGACAATTAAAACTAACGAGACAGAAAGAGAATG
AAGAAAATGTGAAAATGTTAAAGGAGGTCAGATAAGAAAGCACACACAATAATAAAAATA
TTGTTCATTCATAGAAAGTGATTGTAGAATTTAATGTACAAAGAAAATGGAATTCTCTGC
ACCATTACCATTACCAAAACAATGCGAGACTTCCACTGCAGAAGCAACCACAAGCATTTT
AAAATATCCAAAAGACATCAATATAAGCTTTGATAATATAAATTATACAACAAAAATAGG
ATTTTTTAAGAGAAATGATAAGCATATATTAAAAAATTTAAGTGGAGAATTTCGATCACG
CCAACTAACTGCAATTGTAGGCCCATCCGGATCTGGCAAGAGTAGCTTAATGGATATTTT
ATCAGGCTATAATGTAGGAAAAAATGTAACGGGTAGTGTCAAAGTGAATGGAACAATTCG
TGATCAAAAACAATTTCGACATATGAGCAGCTACATTATGCAAGATCATATTCAGCATCC
ATTACTCACTGTTAAAGAAGCTATGAAATTTTCTGCAAATTTAAAAATTGGCAAAGAATT
GAGTTCTGAAGAAAAACAGTTTAAGATCAACGAAATTCTTGAAAACCTTGGATTAACTGA
TAAAATTAATACGATGACAGAAGACTTATCAGGTGGCCAACAAAAACGTTTAAGCATTGC
TCTCGAAATGGTAGATTCTCCTCAAATTATGTTCTTCGATGAAGTTACGACTGGTCTTGA
TAGTTCATCGTCGACACAATGTATATATTTACTGAAGAAATTAGTCATGCTTGGACAAAC
AATAATTTGT
>g10958.t3 Gene=g10958 Length=228
MEFSAPLPLPKQCETSTAEATTSILKYPKDINISFDNINYTTKIGFFKRNDKHILKNLSG
EFRSRQLTAIVGPSGSGKSSLMDILSGYNVGKNVTGSVKVNGTIRDQKQFRHMSSYIMQD
HIQHPLLTVKEAMKFSANLKIGKELSSEEKQFKINEILENLGLTDKINTMTEDLSGGQQK
RLSIALEMVDSPQIMFFDEVTTGLDSSSSTQCIYLLKKLVMLGQTIIC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10958.t3 | Gene3D | G3DSA:3.40.50.300 | - | 32 | 228 | 1.5E-44 |
| 2 | g10958.t3 | PANTHER | PTHR48041:SF78 | ABC TRANSPORTER EXPRESSED IN TRACHEA, ISOFORM A-RELATED | 23 | 228 | 2.8E-75 |
| 3 | g10958.t3 | PANTHER | PTHR48041 | ABC TRANSPORTER G FAMILY MEMBER 28 | 23 | 228 | 2.8E-75 |
| 1 | g10958.t3 | Pfam | PF00005 | ABC transporter | 55 | 201 | 3.7E-24 |
| 5 | g10958.t3 | ProSitePatterns | PS00211 | ABC transporters family signature. | 174 | 188 | - |
| 7 | g10958.t3 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 33 | 227 | 9.891 |
| 4 | g10958.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 50 | 228 | 4.64E-38 |
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 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.
