General information for g11211.t64
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15.
Parent gene
- The parent gene g11211 is located on chr_1: 14600657..14601436 (- 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 | g11211 | g11211.t64 | isoform | g11211.t64 | 14600657 | 14601436 |
| chr_1 | g11211 | g11211.t64 | exon | g11211.t64.exon1 | 14600657 | 14601031 |
| chr_1 | g11211 | g11211.t64 | cds | g11211.t64.CDS1 | 14600658 | 14601031 |
| chr_1 | g11211 | g11211.t64 | exon | g11211.t64.exon2 | 14601089 | 14601321 |
| chr_1 | g11211 | g11211.t64 | cds | g11211.t64.CDS2 | 14601089 | 14601321 |
| chr_1 | g11211 | g11211.t64 | exon | g11211.t64.exon3 | 14601387 | 14601436 |
| chr_1 | g11211 | g11211.t64 | cds | g11211.t64.CDS3 | 14601387 | 14601436 |
| chr_1 | g11211 | g11211.t64 | TSS | g11211.t64 | 14601549 | 14601549 |
| chr_1 | g11211 | g11211.t64 | TTS | g11211.t64 | NA | NA |
Sequences
>g11211.t64 Gene=g11211 Length=658
ATGTCAAAACGAAGAATAGAAGTACTGGACCCATTTATCAAGAAACGAAGAGAAGAAAAA
GGAATTCCTGTTGATAGTGGCTCATCTTCATCATCAGTCGTAATTACAACAACACCAGTT
ATGTCTGGATCGATAAATCCACTCACAGGCGCACTTTATTCTGCAAATTATCATGCTCTA
TATAAAAAGCGTGTTTTGTTGCCTGTATTTGAATATCGTGCTGATTTCATGCGATTACTA
GCAGAACATCAATGCATTGTATTAGTCGGCGAAACTGGATCAGGAAAAACAACACAAATT
CCACAATGGGCAGTAGATTACGCGCGAAGTATGAGTAGTAAAGGAGTTGCATGTACACAG
CCAAGAAGAGTAGCAGCAATGTCAGTTGCTCAGCGTGTTTCTGAAGAAATGGACGTTCTT
TTGGGACAAGAAGTCGGATATTCAATTCGTTTTGAAGATTGCTCTTCACCAAAAACTGTG
TTAAAGTACTTGACCGATGGTATGTTACTGAGAGAAGCAATGTCTGATCCAATGCTTGAA
GCATATCAAGTTATTTTGCTCGACGAAGCGCATGAAAGGACATTAGCCACAGATTTGTTG
ATGGGAGTTTTGAAAGAAGTGATTAAACAACGTTCTGATTTGAAATTAGTTATTATGT
>g11211.t64 Gene=g11211 Length=219
MSKRRIEVLDPFIKKRREEKGIPVDSGSSSSSVVITTTPVMSGSINPLTGALYSANYHAL
YKKRVLLPVFEYRADFMRLLAEHQCIVLVGETGSGKTTQIPQWAVDYARSMSSKGVACTQ
PRRVAAMSVAQRVSEEMDVLLGQEVGYSIRFEDCSSPKTVLKYLTDGMLLREAMSDPMLE
AYQVILLDEAHERTLATDLLMGVLKEVIKQRSDLKLVIM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g11211.t64 | Gene3D | G3DSA:3.40.50.300 | - | 29 | 219 | 0.000000 |
| 2 | g11211.t64 | PANTHER | PTHR18934:SF95 | PRE-MRNA-SPLICING FACTOR ATP-DEPENDENT RNA HELICASE DHX15 | 37 | 219 | 0.000000 |
| 3 | g11211.t64 | PANTHER | PTHR18934 | ATP-DEPENDENT RNA HELICASE | 37 | 219 | 0.000000 |
| 1 | g11211.t64 | Pfam | PF00448 | SRP54-type protein, GTPase domain | 85 | 140 | 0.000059 |
| 7 | g11211.t64 | ProSiteProfiles | PS51192 | Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. | 77 | 219 | 15.281000 |
| 5 | g11211.t64 | SMART | SM00487 | ultradead3 | 65 | 217 | 0.000000 |
| 4 | g11211.t64 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 46 | 219 | 0.000000 |
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:0006614 | SRP-dependent cotranslational protein targeting to membrane | BP |
| GO:0005525 | GTP 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.
