General information for g8095.t26
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Helicase SKI2W.
Parent gene
- The parent gene g8095 is located on chr_2: 28553104..28556879 (- 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 | g8095 | g8095.t26 | isoform | g8095.t26 | 28553104 | 28554267 |
| chr_2 | g8095 | g8095.t26 | exon | g8095.t26.exon1 | 28553104 | 28553328 |
| chr_2 | g8095 | g8095.t26 | cds | g8095.t26.CDS1 | 28553104 | 28553328 |
| chr_2 | g8095 | g8095.t26 | exon | g8095.t26.exon2 | 28553383 | 28554267 |
| chr_2 | g8095 | g8095.t26 | cds | g8095.t26.CDS2 | 28553383 | 28554138 |
| chr_2 | g8095 | g8095.t26 | TSS | g8095.t26 | 28555193 | 28555193 |
| chr_2 | g8095 | g8095.t26 | TTS | g8095.t26 | NA | NA |
Sequences
>g8095.t26 Gene=g8095 Length=1110
CATTTTGAAGAAATTTATCAAAAGAAAAGTGTTTTATGGCACAAAATAATTGCCTTATCA
CAAAACTATAATAATTTGTCTAACGACAATGGCGATCACACAATTCTTACTCTCAAAGCA
TCAGATATTATGGAAATAACTCGTACTATATTTAAATGTGATGCAGAGAAAATCATTTTG
AATTGGGAACAACGACAAATTCCACGTTTTAAGGATAGTCCAGCGGGTCCTAGTGTTGTA
CAAGCTATAAACGATTTAAATGCGCTTATTAAATCTAATACAAAGCTTGAATGCTTATCT
TTGACAAGTCAAAATATTGAACTATTTGAACAACTTAAGCAGCTCGTAGAATTAAAAGAG
AATATTGCGATATATCAACCATACACCAATGTTCCAAATTTCTTAGAAAAATTTTCCCAA
GTCTTTGATCGTAAAATTCTTGAAGACCGAAAAGAGACTTTAATGTTTCAATTATCTAAT
AAAAATTTATCACTTTATCCTGATTATTGCAATAAGCTGCTTGTACTTCAAGAATTGAAA
TATATAGATGAGTTGAATCAAGTGGCATTAAAAGGACGTGTTGCTTGTGAGATGGGTCAG
AATGAACTTATCATAACAGAATTAGTTTTGCGAAATGTACTCACAAACCTTGAACCTGCT
GAAATTGCTGCCTTACTCTCATCTCTTGTATTTCAAGCAAAAACAGACGTAGAACCTAGT
GTGTCAGAAAAGATGAAGTCACTTATACAAAAAGTTACTGAAGTGGAAGAGTCAATACGT
GAAGTTGAAATGAAATACAATGTTGGAAAATCTGATGAAACTGTAGAAAGAGATCGCCTT
AATTTTGGTCTAATTGAGGTTGTTTATGAATGGGCCAGAAATAAGCCATTTTCAGAGATT
ATACAATTAACAGACATAAAAGAAGGTGTCATCGTAAGATGTATTCAACAGTTGCATGAA
ACACTTAGTGATGTTAAAGATGCTGCAAGAATCATTGGTGATCCTGTGCTTCATTCAAAA
ATGGAAGAGGCTTCAAACGCGATCAAACGTGATATCGTTTTTGCTGCATCTCTCTATACA
TCAAATGATACAATAACTATTACTGCTTAG
>g8095.t26 Gene=g8095 Length=326
MEITRTIFKCDAEKIILNWEQRQIPRFKDSPAGPSVVQAINDLNALIKSNTKLECLSLTS
QNIELFEQLKQLVELKENIAIYQPYTNVPNFLEKFSQVFDRKILEDRKETLMFQLSNKNL
SLYPDYCNKLLVLQELKYIDELNQVALKGRVACEMGQNELIITELVLRNVLTNLEPAEIA
ALLSSLVFQAKTDVEPSVSEKMKSLIQKVTEVEESIREVEMKYNVGKSDETVERDRLNFG
LIEVVYEWARNKPFSEIIQLTDIKEGVIVRCIQQLHETLSDVKDAARIIGDPVLHSKMEE
ASNAIKRDIVFAASLYTSNDTITITA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8095.t26 | Coils | Coil | Coil | 202 | 222 | - |
| 5 | g8095.t26 | Gene3D | G3DSA:1.10.3380.30 | - | 90 | 310 | 1.4E-70 |
| 2 | g8095.t26 | PANTHER | PTHR12131 | ATP-DEPENDENT RNA AND DNA HELICASE | 15 | 317 | 1.4E-87 |
| 3 | g8095.t26 | PANTHER | PTHR12131:SF8 | HELICASE SKI2W | 15 | 317 | 1.4E-87 |
| 1 | g8095.t26 | Pfam | PF08148 | DSHCT (NUC185) domain | 143 | 312 | 3.4E-47 |
| 4 | g8095.t26 | SMART | SM01142 | DSHCT_2 | 140 | 317 | 1.4E-72 |
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.
