General information for g11211.t58
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t58 | TTS | g11211.t58 | 14598503 | 14598503 |
| chr_1 | g11211 | g11211.t58 | isoform | g11211.t58 | 14598609 | 14600404 |
| chr_1 | g11211 | g11211.t58 | exon | g11211.t58.exon1 | 14598609 | 14598730 |
| chr_1 | g11211 | g11211.t58 | exon | g11211.t58.exon2 | 14598786 | 14599139 |
| chr_1 | g11211 | g11211.t58 | exon | g11211.t58.exon3 | 14599200 | 14599404 |
| chr_1 | g11211 | g11211.t58 | cds | g11211.t58.CDS1 | 14599325 | 14599404 |
| chr_1 | g11211 | g11211.t58 | exon | g11211.t58.exon4 | 14599565 | 14599751 |
| chr_1 | g11211 | g11211.t58 | cds | g11211.t58.CDS2 | 14599565 | 14599751 |
| chr_1 | g11211 | g11211.t58 | exon | g11211.t58.exon5 | 14599808 | 14600000 |
| chr_1 | g11211 | g11211.t58 | cds | g11211.t58.CDS3 | 14599808 | 14599927 |
| chr_1 | g11211 | g11211.t58 | exon | g11211.t58.exon6 | 14600059 | 14600404 |
| chr_1 | g11211 | g11211.t58 | TSS | g11211.t58 | NA | NA |
Sequences
>g11211.t58 Gene=g11211 Length=1407
TGTTCTTAACTGGTCAAGAGGAAATCGAAGAAGCATGTAAACGCGTAAAGCGTGAAATTG
ATAATTTAGGACCCGATGTCGGTGAACTGAGATGTATTCCCTTGTATTCAACCTTACCGC
CAGCAGCTCAACAGAAAATTTTTGAGCCAGCACCACCAAAAAGAGCGAATGGTGCTATTG
GTCGAAAAGTTGTCATTAGTACAAATATTGCTGAAACATCTCTTACAATTGATGGAGTTG
TGTTTGTAATTGATCCTGGTTTTGCTAAGCAAAAGGTTTATAATCCACGTATTCGTGTCG
AGAGTTTATTAGTTTCGCCTATCAGTAAAGCATCCGCACAGCAACGTGCTGGTCGTGCTG
GACGTACACGTCCTGGAAAATGTTTCAGACTTTATACTGAAAAAGCTTACAAAAATGAAA
TGCAGGATAATACATATCCAGAAATTTTACGTTCAAATTTGGGAACTGTTGTTCTTCAAC
TAAAGAAACTTGGCATTGATGATTTAGTTCATTTTGATTTTATGGATCCGCCTGCACCAG
AAACTCTTATGCGTGCTTTGGAGTTATTAAATTATTTGGCAGCACTTGATGACGATGGAA
ACTTGACTGATCTTGGATCTGTTTGTTCTGAATTTCCTCTTGATCCACAATTAGCAAAAA
TGTTGATTGCTTCATGTTCACACAACTGCTCTAATGAGATTCTCTCAATTACTGCAATGT
TATCGGGATTTTTTTTATTAATTCTGATCCCCATTCAAAAAACTGCACATTTGCTGCGTC
CATTTTTTTCTGTTCTTAACTTTTAAAGTGCCCCAGGCTTTTGTTAGACCTAATGAAATG
AAGAAGCAAGCAGACGATGCCAAGATGAGATTTGCACACATCGATGGTGATCATTTGACA
CTTCTCAATGTATTTCATGCTTTCAAGCAGAATAATGAAGATCCACAATGGTGTTATGAG
AATTTCATCAATTATCGTTCGCTGAAATCAGCTGATAATGTTCGTCAACAATTGGCTCGT
ATCATGGACAGATTTAATTTGAAGCGCACGAGTACAGAGTTCACAAGCAAGGATTATTAT
GTTAATATTCGTAAAGCACTTGTTGAAGGATTCTTCATGCAAGTCGCACATTTGGAACGC
ACTGGTCACTACTTAACAATCAAGGATAATCAGATTGTTCAATTACATCCATCCACATGC
TTAGATCATAAACCAGATTGGGTCATTTATAATGAGTTTGTATTAACAACAAAGAATTAT
ATTAGGACAGTAACCGATATTAAACCCGAATGGTTATTGAAGCTTGCACCACAATATTAC
GATCTCAACAATTTCCCAGCATGTGAGGCAAAGAGACAGTTAGAAAACTTACAAGCAAGG
CTAGAGAGTCGTCAATATCAATATTAA
>g11211.t58 Gene=g11211 Length=128
MQDNTYPEILRSNLGTVVLQLKKLGIDDLVHFDFMDPPAPETLMRALELLNYLAALDDDG
NLTDLGSVCSEFPLDPQLAKMLIASCSHNCSNEILSITAMLSGFFLLILIPIQKTAHLLR
PFFSVLNF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11211.t58 | Gene3D | G3DSA:1.20.120.1080 | - | 27 | 117 | 9.6E-29 |
| 2 | g11211.t58 | PANTHER | PTHR18934:SF95 | PRE-MRNA-SPLICING FACTOR ATP-DEPENDENT RNA HELICASE DHX15 | 1 | 105 | 7.2E-56 |
| 3 | g11211.t58 | PANTHER | PTHR18934 | ATP-DEPENDENT RNA HELICASE | 1 | 105 | 7.2E-56 |
| 1 | g11211.t58 | Pfam | PF04408 | Helicase associated domain (HA2) | 46 | 102 | 1.9E-19 |
| 9 | g11211.t58 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 93 | - |
| 10 | g11211.t58 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 94 | 112 | - |
| 8 | g11211.t58 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 113 | 128 | - |
| 6 | g11211.t58 | SMART | SM00847 | ha2_5 | 45 | 126 | 2.3E-13 |
| 5 | g11211.t58 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 3 | 102 | 3.36E-21 |
| 4 | g11211.t58 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 90 | 112 | - |
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:0004386 | 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.
