General information for g11211.t1
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.t1 | TTS | g11211.t1 | 14598503 | 14598503 |
| chr_1 | g11211 | g11211.t1 | isoform | g11211.t1 | 14598609 | 14601436 |
| chr_1 | g11211 | g11211.t1 | exon | g11211.t1.exon1 | 14598609 | 14598730 |
| chr_1 | g11211 | g11211.t1 | cds | g11211.t1.CDS1 | 14598609 | 14598730 |
| chr_1 | g11211 | g11211.t1 | exon | g11211.t1.exon2 | 14598786 | 14599139 |
| chr_1 | g11211 | g11211.t1 | cds | g11211.t1.CDS2 | 14598786 | 14599139 |
| chr_1 | g11211 | g11211.t1 | exon | g11211.t1.exon3 | 14599200 | 14599322 |
| chr_1 | g11211 | g11211.t1 | cds | g11211.t1.CDS3 | 14599200 | 14599322 |
| chr_1 | g11211 | g11211.t1 | exon | g11211.t1.exon4 | 14599565 | 14599751 |
| chr_1 | g11211 | g11211.t1 | cds | g11211.t1.CDS4 | 14599565 | 14599751 |
| chr_1 | g11211 | g11211.t1 | exon | g11211.t1.exon5 | 14599808 | 14600000 |
| chr_1 | g11211 | g11211.t1 | cds | g11211.t1.CDS5 | 14599808 | 14600000 |
| chr_1 | g11211 | g11211.t1 | exon | g11211.t1.exon6 | 14600059 | 14600578 |
| chr_1 | g11211 | g11211.t1 | cds | g11211.t1.CDS6 | 14600059 | 14600578 |
| chr_1 | g11211 | g11211.t1 | exon | g11211.t1.exon7 | 14600645 | 14601031 |
| chr_1 | g11211 | g11211.t1 | cds | g11211.t1.CDS7 | 14600645 | 14601031 |
| chr_1 | g11211 | g11211.t1 | exon | g11211.t1.exon8 | 14601089 | 14601321 |
| chr_1 | g11211 | g11211.t1 | cds | g11211.t1.CDS8 | 14601089 | 14601321 |
| chr_1 | g11211 | g11211.t1 | exon | g11211.t1.exon9 | 14601387 | 14601436 |
| chr_1 | g11211 | g11211.t1 | cds | g11211.t1.CDS9 | 14601387 | 14601436 |
| chr_1 | g11211 | g11211.t1 | TSS | g11211.t1 | 14601549 | 14601549 |
Sequences
>g11211.t1 Gene=g11211 Length=2169
ATGTCAAAACGAAGAATAGAAGTACTGGACCCATTTATCAAGAAACGAAGAGAAGAAAAA
GGAATTCCTGTTGATAGTGGCTCATCTTCATCATCAGTCGTAATTACAACAACACCAGTT
ATGTCTGGATCGATAAATCCACTCACAGGCGCACTTTATTCTGCAAATTATCATGCTCTA
TATAAAAAGCGTGTTTTGTTGCCTGTATTTGAATATCGTGCTGATTTCATGCGATTACTA
GCAGAACATCAATGCATTGTATTAGTCGGCGAAACTGGATCAGGAAAAACAACACAAATT
CCACAATGGGCAGTAGATTACGCGCGAAGTATGAGTAGTAAAGGAGTTGCATGTACACAG
CCAAGAAGAGTAGCAGCAATGTCAGTTGCTCAGCGTGTTTCTGAAGAAATGGACGTTCTT
TTGGGACAAGAAGTCGGATATTCAATTCGTTTTGAAGATTGCTCTTCACCAAAAACTGTG
TTAAAGTACTTGACCGATGGTATGTTACTGAGAGAAGCAATGTCTGATCCAATGCTTGAA
GCATATCAAGTTATTTTGCTCGACGAAGCGCATGAAAGGACATTAGCCACAGATTTGTTG
ATGGGAGTTTTGAAAGAAGTGATTAAACAACGTTCTGATTTGAAATTAGTTATTATGTCT
GCCACATTAGATGCTGGAAAATTTCAAAATTATTTCGATAACGCACCATTGATGAATGTT
CCTGGTCGCACACATCCAGTAGAAATCTTTTATACTCCTGAGCCGGAACGCGACTATTTG
GAGGCTGCAATTAGAACTGTTATTCAAATTCACATGTGTGAAGAAGTCGAAGGTGATATC
TTGATGTTCTTAACTGGTCAAGAGGAAATCGAAGAAGCATGTAAACGCGTAAAGCGTGAA
ATTGATAATTTAGGACCCGATGTCGGTGAACTGAGATGTATTCCCTTGTATTCAACCTTA
CCGCCAGCAGCTCAACAGAAAATTTTTGAGCCAGCACCACCAAAAAGAGCGAATGGTGCT
ATTGGTCGAAAAGTTGTCATTAGTACAAATATTGCTGAAACATCTCTTACAATTGATGGA
GTTGTGTTTGTAATTGATCCTGGTTTTGCTAAGCAAAAGGTTTATAATCCACGTATTCGT
GTCGAGAGTTTATTAGTTTCGCCTATCAGTAAAGCATCCGCACAGCAACGTGCTGGTCGT
GCTGGACGTACACGTCCTGGAAAATGTTTCAGACTTTATACTGAAAAAGCTTACAAAAAT
GAAATGCAGGATAATACATATCCAGAAATTTTACGTTCAAATTTGGGAACTGTTGTTCTT
CAACTAAAGAAACTTGGCATTGATGATTTAGTTCATTTTGATTTTATGGATCCGCCTGCA
CCAGAAACTCTTATGCGTGCTTTGGAGTTATTAAATTATTTGGCAGCACTTGATGACGAT
GGAAACTTGACTGATCTTGGATCTGTTTGTTCTGAATTTCCTCTTGATCCACAATTAGCA
AAAATGTTGATTGCTTCATGTTCACACAACTGCTCTAATGAGATTCTCTCAATTACTGCA
ATGTTATCGGTGCCCCAGGCTTTTGTTAGACCTAATGAAATGAAGAAGCAAGCAGACGAT
GCCAAGATGAGATTTGCACACATCGATGGTGATCATTTGACACTTCTCAATGTATTTCAT
GCTTTCAAGCAGAATAATGAAGATCCACAATGGTGTTATGAGAATTTCATCAATTATCGT
TCGCTGAAATCAGCTGATAATGTTCGTCAACAATTGGCTCGTATCATGGACAGATTTAAT
TTGAAGCGCACGAGTACAGAGTTCACAAGCAAGGATTATTATGTTAATATTCGTAAAGCA
CTTGTTGAAGGATTCTTCATGCAAGTCGCACATTTGGAACGCACTGGTCACTACTTAACA
ATCAAGGATAATCAGATTGTTCAATTACATCCATCCACATGCTTAGATCATAAACCAGAT
TGGGTCATTTATAATGAGTTTGTATTAACAACAAAGAATTATATTAGGACAGTAACCGAT
ATTAAACCCGAATGGTTATTGAAGCTTGCACCACAATATTACGATCTCAACAATTTCCCA
GCATGTGAGGCAAAGAGACAGTTAGAAAACTTACAAGCAAGGCTAGAGAGTCGTCAATAT
CAATATTAA
>g11211.t1 Gene=g11211 Length=722
MSKRRIEVLDPFIKKRREEKGIPVDSGSSSSSVVITTTPVMSGSINPLTGALYSANYHAL
YKKRVLLPVFEYRADFMRLLAEHQCIVLVGETGSGKTTQIPQWAVDYARSMSSKGVACTQ
PRRVAAMSVAQRVSEEMDVLLGQEVGYSIRFEDCSSPKTVLKYLTDGMLLREAMSDPMLE
AYQVILLDEAHERTLATDLLMGVLKEVIKQRSDLKLVIMSATLDAGKFQNYFDNAPLMNV
PGRTHPVEIFYTPEPERDYLEAAIRTVIQIHMCEEVEGDILMFLTGQEEIEEACKRVKRE
IDNLGPDVGELRCIPLYSTLPPAAQQKIFEPAPPKRANGAIGRKVVISTNIAETSLTIDG
VVFVIDPGFAKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEKAYKN
EMQDNTYPEILRSNLGTVVLQLKKLGIDDLVHFDFMDPPAPETLMRALELLNYLAALDDD
GNLTDLGSVCSEFPLDPQLAKMLIASCSHNCSNEILSITAMLSVPQAFVRPNEMKKQADD
AKMRFAHIDGDHLTLLNVFHAFKQNNEDPQWCYENFINYRSLKSADNVRQQLARIMDRFN
LKRTSTEFTSKDYYVNIRKALVEGFFMQVAHLERTGHYLTIKDNQIVQLHPSTCLDHKPD
WVIYNEFVLTTKNYIRTVTDIKPEWLLKLAPQYYDLNNFPACEAKRQLENLQARLESRQY
QY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g11211.t1 | CDD | cd17973 | DEXHc_DHX15 | 55 | 240 | 0.000 |
| 16 | g11211.t1 | CDD | cd18791 | SF2_C_RHA | 245 | 413 | 0.000 |
| 10 | g11211.t1 | Gene3D | G3DSA:3.40.50.300 | - | 33 | 243 | 0.000 |
| 11 | g11211.t1 | Gene3D | G3DSA:3.40.50.300 | - | 244 | 426 | 0.000 |
| 12 | g11211.t1 | Gene3D | G3DSA:1.20.120.1080 | - | 449 | 558 | 0.000 |
| 4 | g11211.t1 | PANTHER | PTHR18934:SF95 | PRE-MRNA-SPLICING FACTOR ATP-DEPENDENT RNA HELICASE DHX15 | 40 | 721 | 0.000 |
| 5 | g11211.t1 | PANTHER | PTHR18934 | ATP-DEPENDENT RNA HELICASE | 40 | 721 | 0.000 |
| 2 | g11211.t1 | Pfam | PF00271 | Helicase conserved C-terminal domain | 266 | 404 | 0.000 |
| 3 | g11211.t1 | Pfam | PF04408 | Helicase associated domain (HA2) | 467 | 555 | 0.000 |
| 1 | g11211.t1 | Pfam | PF07717 | Oligonucleotide/oligosaccharide-binding (OB)-fold | 617 | 693 | 0.000 |
| 14 | g11211.t1 | ProSiteProfiles | PS51192 | Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. | 77 | 241 | 19.940 |
| 13 | g11211.t1 | ProSiteProfiles | PS51194 | Superfamilies 1 and 2 helicase C-terminal domain profile. | 266 | 446 | 16.519 |
| 8 | g11211.t1 | SMART | SM00487 | ultradead3 | 65 | 250 | 0.000 |
| 7 | g11211.t1 | SMART | SM00490 | helicmild6 | 288 | 405 | 0.000 |
| 9 | g11211.t1 | SMART | SM00847 | ha2_5 | 466 | 556 | 0.000 |
| 6 | g11211.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 51 | 660 | 0.000 |
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 transcript has been annotated with K12820 (pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15/PRP43)
Pathway
- This transcript belongs to the following pathways
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.
