General information for g6095.t28
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATP-dependent RNA helicase WM6.
Parent gene
- The parent gene g6095 is located on chr_2: 14095466..14096224 (+ 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_2 | g6095 | g6095.t28 | isoform | g6095.t28 | 14094284 | 14096224 |
| chr_2 | g6095 | g6095.t28 | exon | g6095.t28.exon1 | 14094284 | 14094402 |
| chr_2 | g6095 | g6095.t28 | cds | g6095.t28.CDS1 | 14094286 | 14094402 |
| chr_2 | g6095 | g6095.t28 | exon | g6095.t28.exon2 | 14095120 | 14095398 |
| chr_2 | g6095 | g6095.t28 | cds | g6095.t28.CDS2 | 14095120 | 14095398 |
| chr_2 | g6095 | g6095.t28 | exon | g6095.t28.exon3 | 14095468 | 14095723 |
| chr_2 | g6095 | g6095.t28 | cds | g6095.t28.CDS3 | 14095468 | 14095723 |
| chr_2 | g6095 | g6095.t28 | exon | g6095.t28.exon4 | 14095784 | 14096224 |
| chr_2 | g6095 | g6095.t28 | cds | g6095.t28.CDS4 | 14095784 | 14095797 |
| chr_2 | g6095 | g6095.t28 | TTS | g6095.t28 | 14096130 | 14096130 |
| chr_2 | g6095 | g6095.t28 | TSS | g6095.t28 | NA | NA |
Sequences
>g6095.t28 Gene=g6095 Length=1095
ATATGCGCAAAGATGTACAAGAAATTTTCCGAAACACTCCACACGGAAAACAAGTCATGA
TGTTCTCAGCTACGCTTAGCAAAGAAATAAGACCTATCTGCAAGAAATTTATGCAAGATC
CTATGGAAGTATATGTGGACGATGAAACGAAATTGACTTTACACGGATTGCAACAACACT
ATGTCAAATTGAAGGAAAATGAAAAGAATAAGAAGCTTTTTGAATTACTTGATGTATTGG
AATTCAATCAAGTGGTCATCTTTGTGAAATCAGTTCAAAGATGTGAAGCTTTAGCCACTC
TTTTGACAGATCAGAATTTTCCAGCAATTGCAATTCATCGTGGTATGGCACAAGATGAGC
GTTTGGCTAAATATCAGCAATTTAAAGATTTTCAAAAGCGTATTTTGGTGGCAACAAACT
TATTTGGACGTGGAATGGATATTGAACGTGTTAATATCGTTTTCAACTATGATATGCCTG
AAGATTCTGATACTTATCTTCATCGAGTCGCTCGTGCTGGTCGTTTTGGTACAAAAGGTC
TCGCCATCACTTTTGTTTCTGATGAAAATGATGCAAAGATTTTGAATAATGTTCAGGATC
GCTTCGATGTCAACATAACAGAGTTGCCCGACGAAATAGATCTCAGTTCATACATTGAAG
GACGATAAACAGCTGACGTAAAATTGGCAATATTGAGAATACGCTACATTAAAAAAGAGC
TCAAAGTAGCTTAATACATTCTCTTCATACATAATTTTTAGATCTTAAGCATTTTTTTCT
TAAATTTTGAATTTTCTCACTCTATTTGTGTGTGCAAAAGAGCAAGATATTTAATTATTT
TTCATTAAAGAACTATCAAAACACACACTTTTCAATTGGAATTCAACAAGTGAAATAGAC
TTTCTACACATACACAAACCAAAACCAATATTCATTTTAAAATTAACATAATGTGAAACC
TTCAGAAATAAATAAAAATTTGATTAAATTTTTCTGATTGTAGGACAAACATTTTTTATT
CATCTAATAATTTCTTATCACATCATTACTGCAACTTTTTTAATAATTTGATTTTTCTTA
TCGAAAAAATAATTT
>g6095.t28 Gene=g6095 Length=221
MRKDVQEIFRNTPHGKQVMMFSATLSKEIRPICKKFMQDPMEVYVDDETKLTLHGLQQHY
VKLKENEKNKKLFELLDVLEFNQVVIFVKSVQRCEALATLLTDQNFPAIAIHRGMAQDER
LAKYQQFKDFQKRILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGL
AITFVSDENDAKILNNVQDRFDVNITELPDEIDLSSYIEGR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g6095.t28 | CDD | cd18787 | SF2_C_DEAD | 56 | 185 | 0.0000000 |
| 7 | g6095.t28 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 54 | 0.0000001 |
| 6 | g6095.t28 | Gene3D | G3DSA:3.40.50.300 | - | 57 | 221 | 0.0000000 |
| 2 | g6095.t28 | PANTHER | PTHR47958:SF10 | ATP-DEPENDENT RNA HELICASE DDX39A | 1 | 215 | 0.0000000 |
| 3 | g6095.t28 | PANTHER | PTHR47958 | ATP-DEPENDENT RNA HELICASE DBP3 | 1 | 215 | 0.0000000 |
| 1 | g6095.t28 | Pfam | PF00271 | Helicase conserved C-terminal domain | 68 | 176 | 0.0000000 |
| 9 | g6095.t28 | ProSiteProfiles | PS51192 | Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. | 1 | 43 | 8.7420000 |
| 8 | g6095.t28 | ProSiteProfiles | PS51194 | Superfamilies 1 and 2 helicase C-terminal domain profile. | 55 | 216 | 21.7130000 |
| 5 | g6095.t28 | SMART | SM00490 | helicmild6 | 95 | 176 | 0.0000000 |
| 4 | g6095.t28 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 4 | 191 | 0.0000000 |
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.
