General information for g89.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 g89 is located on chr_3: 840279..858467 (+ 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_3 | g89 | g89.t2 | TSS | g89.t2 | 840262 | 840262 |
| chr_3 | g89 | g89.t2 | isoform | g89.t2 | 840279 | 841470 |
| chr_3 | g89 | g89.t2 | exon | g89.t2.exon1 | 840279 | 840382 |
| chr_3 | g89 | g89.t2 | cds | g89.t2.CDS1 | 840279 | 840382 |
| chr_3 | g89 | g89.t2 | exon | g89.t2.exon2 | 840685 | 841470 |
| chr_3 | g89 | g89.t2 | cds | g89.t2.CDS2 | 840685 | 841468 |
| chr_3 | g89 | g89.t2 | TTS | g89.t2 | NA | NA |
Sequences
>g89.t2 Gene=g89 Length=890
ATGAAGTGTATTGAAGTTAGAGACGTTGTGAAATCATTTAAAACAAATTCTGAGGAAATT
AAAGTTTTGAATGGCGTTAACATGACTGTTGATTGTAATTCAATTTATTCTTTAATTGGT
TCATCAGGTTGTGGTAAAACAACTTTATTGTCATTAATTCTTGGCATGGACAAATTTCAA
AATGGTGAAATTAAAATTTTCAAAACGCCAGTTAAATATGAAAAAACTTTAATGTTTTCA
CAATTAATTGGTTTTATGCCACAAAATTCTTCTGTTCCAATGAATTTAACAATTTTTGAA
GTTCTTCAATATTTTTCAAATTTACACATGATGGATCGAAAAAAATTTCAATATCGATTT
GAAATGATTTTGGAATTATTGAATTTGCCATCATCTGACACTGTAATAGGAAAATTATCA
GAAGGTGGAAAACGAAGAGTTTCATTGGCAATTGCAATTATTCATGATCCTAAATTGTTG
CTGCTTGATGAACCAACTGTTGGTGTTGACATTCTTTTACGTGATAAAATTTGGACTTTT
TTGCAAGAACAAACTTTGAAGAAAAAGCTAACAGTGCTCGTCACAACTCACTGCCTTAAT
GAAGCAGAAAAATCAGATCGATGTGGATTTTTACATAAAGGAACTCTTGTAGTTGAAAAT
GCACCATCGAAAATTAAAAATCAATTTAATGTTCCATTACTTGACAATGCTTTCATAAAA
ATTTGCACAAATCAGCTGAAAAATTCTCAAATTGATGATTATGACACTGCTAAAATAATT
GAAGAAGAAAATTTAAATTTTGAAATTAAAAAAGAAAGAAAAATTTTGAGAAGTCAAGTT
GTGAAAGGTTTAGCAATTAAAGAATGGCATCGAATAAAAAGACAATTTTT
>g89.t2 Gene=g89 Length=296
MKCIEVRDVVKSFKTNSEEIKVLNGVNMTVDCNSIYSLIGSSGCGKTTLLSLILGMDKFQ
NGEIKIFKTPVKYEKTLMFSQLIGFMPQNSSVPMNLTIFEVLQYFSNLHMMDRKKFQYRF
EMILELLNLPSSDTVIGKLSEGGKRRVSLAIAIIHDPKLLLLDEPTVGVDILLRDKIWTF
LQEQTLKKKLTVLVTTHCLNEAEKSDRCGFLHKGTLVVENAPSKIKNQFNVPLLDNAFIK
ICTNQLKNSQIDDYDTAKIIEEENLNFEIKKERKILRSQVVKGLAIKEWHRIKRQF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g89.t2 | CDD | cd03230 | ABC_DR_subfamily_A | 4 | 216 | 0.0000000 |
| 5 | g89.t2 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 276 | 0.0000000 |
| 2 | g89.t2 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 3 | 248 | 0.0000000 |
| 1 | g89.t2 | Pfam | PF00005 | ABC transporter | 23 | 166 | 0.0000000 |
| 6 | g89.t2 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 4 | 238 | 19.0740000 |
| 4 | g89.t2 | SMART | SM00382 | AAA_5 | 32 | 235 | 0.0000007 |
| 3 | g89.t2 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 3 | 230 | 0.0000000 |
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 |
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. There were no conditions that were differentially expressed