General information for g2288.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Piwi-like protein Siwi.
Parent gene
- The parent gene g2288 is located on chr_3: 16495336..16496311 (+ 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_3 | g2288 | g2288.t2 | isoform | g2288.t2 | 16492704 | 16494234 |
| chr_3 | g2288 | g2288.t2 | exon | g2288.t2.exon1 | 16492704 | 16492848 |
| chr_3 | g2288 | g2288.t2 | TSS | g2288.t2 | 16492724 | 16492724 |
| chr_3 | g2288 | g2288.t2 | exon | g2288.t2.exon2 | 16493299 | 16493448 |
| chr_3 | g2288 | g2288.t2 | cds | g2288.t2.CDS1 | 16493310 | 16493448 |
| chr_3 | g2288 | g2288.t2 | exon | g2288.t2.exon3 | 16493580 | 16494234 |
| chr_3 | g2288 | g2288.t2 | cds | g2288.t2.CDS2 | 16493580 | 16494232 |
| chr_3 | g2288 | g2288.t2 | TTS | g2288.t2 | NA | NA |
Sequences
>g2288.t2 Gene=g2288 Length=950
AGCAAAACGCGTTAAAAGCACATTGAAATTTAAAAGGAAATTCCTGAGGGAATTTATTCA
AACAAAAAATTGATAAATATAATTAAATTAAACAGTGTTAACATAATAAAAAGCAATATA
GTGTTACTATTTAAATAATATAAAAATTCTTCAAAAATGGAAGATAAAAAGAAAATAAAA
AAACTTAAGAAGAGTGATGAGAAAGGCGATGCAAAAGATAAACCGAAGCCTTCAGAAGAA
GGAGATCAAAAGAAAGTTGGAAGAGGACGAGGCTTTGAGTCCAGCAGTGATTCAGGTAGT
GGAAGTGGCACAACGGAGAGCGATAAAGCAACTGGTTCTACACCTTCAAGTGGCACAAAA
GACTCTAAACAACAATCAGATGTTACTATGAAAACCATCGAATCTGAAGATCGAAAAGAT
GGCCGAAGATTATGGCTCCAATCAGAAACATATAAGACACGACCCGAATCATACGATACT
TCTTCGTTCAAACCGGTTGAAAACGATCCCAATAAGAAGTTTGTGGCAAATTACTTTAGA
CTTAACCAAATGAAGGAATTTGAATTTGTTCAGTACCGCATTGACATCATTCCGGAAACG
GATGAAAAAAATATTCGACGTGCTTTGATCGCAAAATGTCGTTCACATTTGAAAGGATAT
GTTTTTGATGGTGGTAGCATGATTTTTGTAACACGTCCTCTTCAGTCAGATCCACTTGAA
ATTGCTACACGCCTTGATAACAACCCAACTGAATACAAATTGATTTTTCGAAAAACTAAC
TTGCTAATAAATCAAGCTGACGGAACAGCTTTACATGTATTCAATGTGATACTAAGAAAA
GCAATGGCTGGTTTAAATTTGAAAGAGATTCAACGTCACCTTTATGATATAAGAGCTAAA
ATACAATTGCCAGAGTTCAAATTAGAATTATTACCCGGTTACATCACAAG
>g2288.t2 Gene=g2288 Length=264
MEDKKKIKKLKKSDEKGDAKDKPKPSEEGDQKKVGRGRGFESSSDSGSGSGTTESDKATG
STPSSGTKDSKQQSDVTMKTIESEDRKDGRRLWLQSETYKTRPESYDTSSFKPVENDPNK
KFVANYFRLNQMKEFEFVQYRIDIIPETDEKNIRRALIAKCRSHLKGYVFDGGSMIFVTR
PLQSDPLEIATRLDNNPTEYKLIFRKTNLLINQADGTALHVFNVILRKAMAGLNLKEIQR
HLYDIRAKIQLPEFKLELLPGYIT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2288.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 39 | - |
| 8 | g2288.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 96 | - |
| 7 | g2288.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 41 | 77 | - |
| 6 | g2288.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 78 | 96 | - |
| 2 | g2288.t2 | PANTHER | PTHR22891 | EUKARYOTIC TRANSLATION INITIATION FACTOR 2C | 35 | 264 | 8.7E-18 |
| 3 | g2288.t2 | PANTHER | PTHR22891:SF164 | PIWI-LIKE PROTEIN 1 | 35 | 264 | 8.7E-18 |
| 1 | g2288.t2 | Pfam | PF16486 | N-terminal domain of argonaute | 124 | 242 | 3.1E-7 |
| 4 | g2288.t2 | SUPERFAMILY | SSF101690 | PAZ domain | 121 | 264 | 8.63E-11 |
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:0005515 | protein binding | MF |
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.
