General information for g6095.t12
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.t12 | TSS | g6095.t12 | 14092094 | 14092094 |
| chr_2 | g6095 | g6095.t12 | isoform | g6095.t12 | 14092941 | 14096224 |
| chr_2 | g6095 | g6095.t12 | exon | g6095.t12.exon1 | 14092941 | 14092952 |
| chr_2 | g6095 | g6095.t12 | exon | g6095.t12.exon2 | 14093205 | 14093442 |
| chr_2 | g6095 | g6095.t12 | exon | g6095.t12.exon3 | 14093632 | 14093931 |
| chr_2 | g6095 | g6095.t12 | exon | g6095.t12.exon4 | 14093994 | 14094098 |
| chr_2 | g6095 | g6095.t12 | exon | g6095.t12.exon5 | 14094284 | 14094797 |
| chr_2 | g6095 | g6095.t12 | exon | g6095.t12.exon6 | 14094863 | 14095398 |
| chr_2 | g6095 | g6095.t12 | cds | g6095.t12.CDS1 | 14095123 | 14095398 |
| chr_2 | g6095 | g6095.t12 | exon | g6095.t12.exon7 | 14095468 | 14095723 |
| chr_2 | g6095 | g6095.t12 | cds | g6095.t12.CDS2 | 14095468 | 14095723 |
| chr_2 | g6095 | g6095.t12 | exon | g6095.t12.exon8 | 14095784 | 14096224 |
| chr_2 | g6095 | g6095.t12 | cds | g6095.t12.CDS3 | 14095784 | 14095797 |
| chr_2 | g6095 | g6095.t12 | TTS | g6095.t12 | NA | NA |
Sequences
>g6095.t12 Gene=g6095 Length=2402
GCTAATTTTATCTTCAAGTATTACAAGAGCATTAAATAAATAATTGCAACAATATGGCTG
ATAATGACGATCTTCTCGACTATGAGGATGAAGAACAAAATGAACAAGCCGTTGTCGACG
CTGGCGAAAAGAAAGATGTAAAAGGAACTTATGTTTCTATTCACAGTTCTGGTTTTCGCG
ATTTCCTTTTAAAACCTGAAATCTTGAGAGCTATTGTTGATTGTGGTTTCGAACATCCTT
CGGCCGGTATTACAACATGAGTGCATTCCACAAGCTGTTTTGGGCATGGACATTCTGTGT
CAGGCAAAATCCGGCATGGGAAAAACAGCTGTCTTTGTTTTGGCAACATTACAGCAACTT
GAACCAACAGATAATCATGTTTATGTTCTTGTAATGTGTCACACTCGTGAACTAGCTTTT
CAAATCAGTAAAGAGTACGAAAGATTTAGCAAGTACATGTCTGGAGTTAAAGTCGGAGTA
TTTTTCGGTGGAATGCCTATTCAAAAAGACGAAGCTACACTGAAAACAACAACACCACAC
ATTGTTGTTGGTACTCCTGGAAGAATTCTTGCCCTCATTCGTGGCAAAAATTTAAATTTG
AAGCATTTGAAACACTTCATTTTGGATGAATGCGATAAAATGTTGGAACAGTTAGATATG
CGCAAAGATGTACAAGAAATTTTCCGAAACACTCCACACGGAAAACAAGTCATGATGTTC
TCAGCTACGCTTAGCAAAGAAATAAGACCTATCTGCAAGAAATTTATGCAAGATGTAAAT
CGCGTTCCAATAATGTTAAGAACATGAAACCAAAATTATTAATCTGAGAAAAGAGTAATT
GCGCGAAAAAAATATTAACGGGTTGCGACTTGATGGCGATAGAAATACAACTGACGGTCT
CTGGAATAATAAAAGCCTAATATAATACAAATTGATAATATTAAGTCCATGTCCACCAAT
ATAAATTATATTTATACCATAATATAGAGTTATAATATATTATTAAATCGTTACCCAGAG
ATCGAACGCGATTAGTCAGTAGCCATATACAAAATTGGGAAAATATTAGGGAAAAGGGGA
ATTGTAATTTGGGATTTTAAAAAAATTGAAATGCTCAAAACATCAATCAATTTATTATAA
GAAGATATCAACTGTTCCCGGATATAATGATAATTGTTTTCCATTTTTGTGCACTAATTG
TGTGATCTTCGCTCTTGGATGACGAGTCTAATATCACGATGTTACCAGCTTGATGGTACC
TAAATCGCCCGAGTTAAATCAATTGCAGCATATTTTAAAATGCCTCATTAATTTCCATCA
CGCTCCCGCGCTTTAAAATTTTTTCTCTTCTCAAATCAAACGTTTTTAAATTTTGTCGTT
TTTTTAACATATTTTTTCTCATCTTTATTTTTCTAAAAAAAAATAGCCTATGGAAGTATA
TGTGGACGATGAAACGAAATTGACTTTACACGGATTGCAACAACACTATGTCAAATTGAA
GGAAAATGAAAAGAATAAGAAGCTTTTTGAATTACTTGATGTATTGGAATTCAATCAAGT
GGTCATCTTTGTGAAATCAGTTCAAAGATGTGAAGCTTTAGCCACTCTTTTGACAGATCA
GAATTTTCCAGCAATTGCAATTCATCGTGGTATGGCACAAGATGAGCGTTTGGCTAAATA
TCAGCAATTTAAAGATTTTCAAAAGCGTATTTTGGTGGCAACAAACTTATTTGGACGTGG
AATGGATATTGAACGTGTTAATATCGTTTTCAACTATGATATGCCTGAAGATTCTGATAC
TTATCTTCATCGAGTCGCTCGTGCTGGTCGTTTTGGTACAAAAGGTCTCGCCATCACTTT
TGTTTCTGATGAAAATGATGCAAAGATTTTGAATAATGTTCAGGATCGCTTCGATGTCAA
CATAACAGAGTTGCCCGACGAAATAGATCTCAGTTCATACATTGAAGGACGATAAACAGC
TGACGTAAAATTGGCAATATTGAGAATACGCTACATTAAAAAAGAGCTCAAAGTAGCTTA
ATACATTCTCTTCATACATAATTTTTAGATCTTAAGCATTTTTTTCTTAAATTTTGAATT
TTCTCACTCTATTTGTGTGTGCAAAAGAGCAAGATATTTAATTATTTTTCATTAAAGAAC
TATCAAAACACACACTTTTCAATTGGAATTCAACAAGTGAAATAGACTTTCTACACATAC
ACAAACCAAAACCAATATTCATTTTAAAATTAACATAATGTGAAACCTTCAGAAATAAAT
AAAAATTTGATTAAATTTTTCTGATTGTAGGACAAACATTTTTTATTCATCTAATAATTT
CTTATCACATCATTACTGCAACTTTTTTAATAATTTGATTTTTCTTATCGAAAAAATAAT
TT
>g6095.t12 Gene=g6095 Length=181
MEVYVDDETKLTLHGLQQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVQRCEALATL
LTDQNFPAIAIHRGMAQDERLAKYQQFKDFQKRILVATNLFGRGMDIERVNIVFNYDMPE
DSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNNVQDRFDVNITELPDEIDLSSYIEG
R
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g6095.t12 | CDD | cd18787 | SF2_C_DEAD | 16 | 145 | 0.000 |
| 6 | g6095.t12 | Gene3D | G3DSA:3.40.50.300 | - | 17 | 181 | 0.000 |
| 2 | g6095.t12 | PANTHER | PTHR47958:SF10 | ATP-DEPENDENT RNA HELICASE DDX39A | 4 | 175 | 0.000 |
| 3 | g6095.t12 | PANTHER | PTHR47958 | ATP-DEPENDENT RNA HELICASE DBP3 | 4 | 175 | 0.000 |
| 1 | g6095.t12 | Pfam | PF00271 | Helicase conserved C-terminal domain | 28 | 136 | 0.000 |
| 7 | g6095.t12 | ProSiteProfiles | PS51194 | Superfamilies 1 and 2 helicase C-terminal domain profile. | 15 | 176 | 21.713 |
| 5 | g6095.t12 | SMART | SM00490 | helicmild6 | 55 | 136 | 0.000 |
| 4 | g6095.t12 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 11 | 171 | 0.000 |
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. There were no conditions that were differentially expressed