General information for g1845.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as RuvB-like helicase 1.
Parent gene
- The parent gene g1845 is located on chr_3: 13281881..13282790 (+ 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 | g1845 | g1845.t5 | TSS | g1845.t5 | 13280231 | 13280231 |
| chr_3 | g1845 | g1845.t5 | isoform | g1845.t5 | 13281055 | 13281957 |
| chr_3 | g1845 | g1845.t5 | exon | g1845.t5.exon1 | 13281055 | 13281957 |
| chr_3 | g1845 | g1845.t5 | cds | g1845.t5.CDS1 | 13281282 | 13281881 |
| chr_3 | g1845 | g1845.t5 | TTS | g1845.t5 | 13281961 | 13281961 |
Sequences
>g1845.t5 Gene=g1845 Length=903
AGAAAGAAAAAGTTGAAGTTGGTGATGTGATTTATATTGAAGCCAACAGTGGAGCAGTGA
AGAGGCAAGGTAGAAGTGATACATTTGCAACAGAGTTTGATTTGGAAACAGAGGAATATG
TTCCTTTGCCAAAAGGAGATGTTCATAAGAAGAAAGAAGTTGTTCAAGATGTTACATTAC
ATGACCTTGATGCTGCAAATGCTCGACCACAAGGCGGACAAGATGTCATGTCACTTCTCG
GACATTTAGTAAAGCCCAAGAAAACAGAAATTACTGACAAATTAAGATTAGAGATCAACA
AAGTAGTTAATAGATATATTGATCAAGGAATAGCTGAACTTGTTCCAGGAGTGTTGTTTA
TCGATGAAGTACATATGCTTGATCTTGAGACTTTTACTTATCTTCATAAATCTCTTGAAT
CTCCCATCGCTCCAATTGTCATTTTTGCTACTAATCGTGGCCGTTGTGTTATTCGTGGAA
CAGACGATATCGTTTCTCCTCATGGAATTCCACTCGATTTGCTGGATCGTCTCATGATTA
TTCGTACATCTCCGTACAGTATTTCTGAAATGGAGCAAATTATCAAATTGAGAGCACAAA
CAGAAGGACTTTCGATTGAAGATGAAGCAATTACAGAATTGAGTGATATAGGCAGTAAAT
CGACATTAAGATATGCTGTGCAACTCATGACTCCTGCATTCCAATCAGCCAAAGTAAATG
GACGATCACAAATTACAAAAGATGACATTACAGAAGTTAATTCTCTATTCCTCGATGCCA
AGAGAAGTGTTAAATTCTTGTCAGAAGGCAGTAAATTCATGAAGTAATTGAGCACAAACT
TGAAATTTATTTTTTAAAAAAAAGCATTAAACATTGATTATTAATAAATTGAGTGTAAGA
ATC
>g1845.t5 Gene=g1845 Length=199
MSLLGHLVKPKKTEITDKLRLEINKVVNRYIDQGIAELVPGVLFIDEVHMLDLETFTYLH
KSLESPIAPIVIFATNRGRCVIRGTDDIVSPHGIPLDLLDRLMIIRTSPYSISEMEQIIK
LRAQTEGLSIEDEAITELSDIGSKSTLRYAVQLMTPAFQSAKVNGRSQITKDDITEVNSL
FLDAKRSVKFLSEGSKFMK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g1845.t5 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 110 | 0 |
| 6 | g1845.t5 | Gene3D | G3DSA:1.10.8.60 | - | 111 | 199 | 0 |
| 3 | g1845.t5 | PANTHER | PTHR11093 | RUVB-RELATED REPTIN AND PONTIN | 1 | 194 | 0 |
| 2 | g1845.t5 | Pfam | PF06068 | TIP49 P-loop domain | 1 | 111 | 0 |
| 1 | g1845.t5 | Pfam | PF17856 | TIP49 AAA-lid domain | 118 | 183 | 0 |
| 4 | g1845.t5 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 34 | 176 | 0 |
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:0043139 | 5’-3’ DNA helicase activity | MF |
| GO:0005524 | ATP binding | MF |
| GO:0003678 | DNA helicase 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.
