General information for g11211.t63
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.t63 | isoform | g11211.t63 | 14599988 | 14601436 |
| chr_1 | g11211 | g11211.t63 | exon | g11211.t63.exon1 | 14599988 | 14600000 |
| chr_1 | g11211 | g11211.t63 | cds | g11211.t63.CDS1 | 14599988 | 14600000 |
| chr_1 | g11211 | g11211.t63 | exon | g11211.t63.exon2 | 14600059 | 14600578 |
| chr_1 | g11211 | g11211.t63 | cds | g11211.t63.CDS2 | 14600059 | 14600578 |
| chr_1 | g11211 | g11211.t63 | exon | g11211.t63.exon3 | 14600645 | 14601031 |
| chr_1 | g11211 | g11211.t63 | cds | g11211.t63.CDS3 | 14600645 | 14601031 |
| chr_1 | g11211 | g11211.t63 | exon | g11211.t63.exon4 | 14601089 | 14601321 |
| chr_1 | g11211 | g11211.t63 | cds | g11211.t63.CDS4 | 14601089 | 14601321 |
| chr_1 | g11211 | g11211.t63 | exon | g11211.t63.exon5 | 14601387 | 14601436 |
| chr_1 | g11211 | g11211.t63 | cds | g11211.t63.CDS5 | 14601387 | 14601436 |
| chr_1 | g11211 | g11211.t63 | TSS | g11211.t63 | 14601549 | 14601549 |
| chr_1 | g11211 | g11211.t63 | TTS | g11211.t63 | NA | NA |
Sequences
>g11211.t63 Gene=g11211 Length=1203
ATGTCAAAACGAAGAATAGAAGTACTGGACCCATTTATCAAGAAACGAAGAGAAGAAAAA
GGAATTCCTGTTGATAGTGGCTCATCTTCATCATCAGTCGTAATTACAACAACACCAGTT
ATGTCTGGATCGATAAATCCACTCACAGGCGCACTTTATTCTGCAAATTATCATGCTCTA
TATAAAAAGCGTGTTTTGTTGCCTGTATTTGAATATCGTGCTGATTTCATGCGATTACTA
GCAGAACATCAATGCATTGTATTAGTCGGCGAAACTGGATCAGGAAAAACAACACAAATT
CCACAATGGGCAGTAGATTACGCGCGAAGTATGAGTAGTAAAGGAGTTGCATGTACACAG
CCAAGAAGAGTAGCAGCAATGTCAGTTGCTCAGCGTGTTTCTGAAGAAATGGACGTTCTT
TTGGGACAAGAAGTCGGATATTCAATTCGTTTTGAAGATTGCTCTTCACCAAAAACTGTG
TTAAAGTACTTGACCGATGGTATGTTACTGAGAGAAGCAATGTCTGATCCAATGCTTGAA
GCATATCAAGTTATTTTGCTCGACGAAGCGCATGAAAGGACATTAGCCACAGATTTGTTG
ATGGGAGTTTTGAAAGAAGTGATTAAACAACGTTCTGATTTGAAATTAGTTATTATGTCT
GCCACATTAGATGCTGGAAAATTTCAAAATTATTTCGATAACGCACCATTGATGAATGTT
CCTGGTCGCACACATCCAGTAGAAATCTTTTATACTCCTGAGCCGGAACGCGACTATTTG
GAGGCTGCAATTAGAACTGTTATTCAAATTCACATGTGTGAAGAAGTCGAAGGTGATATC
TTGATGTTCTTAACTGGTCAAGAGGAAATCGAAGAAGCATGTAAACGCGTAAAGCGTGAA
ATTGATAATTTAGGACCCGATGTCGGTGAACTGAGATGTATTCCCTTGTATTCAACCTTA
CCGCCAGCAGCTCAACAGAAAATTTTTGAGCCAGCACCACCAAAAAGAGCGAATGGTGCT
ATTGGTCGAAAAGTTGTCATTAGTACAAATATTGCTGAAACATCTCTTACAATTGATGGA
GTTGTGTTTGTAATTGATCCTGGTTTTGCTAAGCAAAAGGTTTATAATCCACGTATTCGT
GTCGAGAGTTTATTAGTTTCGCCTATCAGTAAAGCATCCGCACAGCAACGTGCTGGTCGT
GCT
>g11211.t63 Gene=g11211 Length=401
MSKRRIEVLDPFIKKRREEKGIPVDSGSSSSSVVITTTPVMSGSINPLTGALYSANYHAL
YKKRVLLPVFEYRADFMRLLAEHQCIVLVGETGSGKTTQIPQWAVDYARSMSSKGVACTQ
PRRVAAMSVAQRVSEEMDVLLGQEVGYSIRFEDCSSPKTVLKYLTDGMLLREAMSDPMLE
AYQVILLDEAHERTLATDLLMGVLKEVIKQRSDLKLVIMSATLDAGKFQNYFDNAPLMNV
PGRTHPVEIFYTPEPERDYLEAAIRTVIQIHMCEEVEGDILMFLTGQEEIEEACKRVKRE
IDNLGPDVGELRCIPLYSTLPPAAQQKIFEPAPPKRANGAIGRKVVISTNIAETSLTIDG
VVFVIDPGFAKQKVYNPRIRVESLLVSPISKASAQQRAGRA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11211.t63 | CDD | cd17973 | DEXHc_DHX15 | 55 | 240 | 6.67985E-125 |
| 9 | g11211.t63 | CDD | cd18791 | SF2_C_RHA | 245 | 401 | 9.09904E-75 |
| 7 | g11211.t63 | Coils | Coil | Coil | 391 | 401 | - |
| 5 | g11211.t63 | Gene3D | G3DSA:3.40.50.300 | - | 31 | 243 | 2.2E-83 |
| 6 | g11211.t63 | Gene3D | G3DSA:3.40.50.300 | - | 244 | 401 | 3.6E-59 |
| 2 | g11211.t63 | PANTHER | PTHR18934:SF95 | PRE-MRNA-SPLICING FACTOR ATP-DEPENDENT RNA HELICASE DHX15 | 39 | 401 | 1.3E-203 |
| 3 | g11211.t63 | PANTHER | PTHR18934 | ATP-DEPENDENT RNA HELICASE | 39 | 401 | 1.3E-203 |
| 1 | g11211.t63 | Pfam | PF00271 | Helicase conserved C-terminal domain | 266 | 401 | 4.0E-10 |
| 13 | g11211.t63 | ProSiteProfiles | PS51192 | Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. | 77 | 241 | 19.94 |
| 12 | g11211.t63 | ProSiteProfiles | PS51194 | Superfamilies 1 and 2 helicase C-terminal domain profile. | 266 | 401 | 11.291 |
| 11 | g11211.t63 | SMART | SM00487 | ultradead3 | 65 | 250 | 4.6E-28 |
| 10 | g11211.t63 | SMART | SM00490 | helicmild6 | 288 | 400 | 3.2E-9 |
| 4 | g11211.t63 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 51 | 401 | 1.47E-81 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
