General information for g34.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein argonaute-2.
Parent gene
- The parent gene g34 is located on chr_3: 358494..359260 (- 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 | g34 | g34.t2 | isoform | g34.t2 | 355358 | 356442 |
| chr_3 | g34 | g34.t2 | exon | g34.t2.exon1 | 355358 | 355941 |
| chr_3 | g34 | g34.t2 | TTS | g34.t2 | 355359 | 355359 |
| chr_3 | g34 | g34.t2 | cds | g34.t2.CDS1 | 355663 | 355941 |
| chr_3 | g34 | g34.t2 | exon | g34.t2.exon2 | 355997 | 356442 |
| chr_3 | g34 | g34.t2 | cds | g34.t2.CDS2 | 355997 | 356359 |
| chr_3 | g34 | g34.t2 | TSS | g34.t2 | NA | NA |
Sequences
>g34.t2 Gene=g34 Length=1030
CAGTTGTTGGCGTGGCTTCTTCGCATGATGATGTCGGATTTCGATATTGCTGCGCGTGGA
GATTGCAAGATCCCACAAAAGAAATGATTGTTGATTTAGAAGAAATCGTTGCTCAACATT
TACATTTTTATAAAGAGAAAAATAAGAAACTTCCTGGTAAAATAATGTATTACCGTGATG
GAGTTAGTGAAGGTCAATTTAGACAAGTGCTTGATATTGAAATGACTGCTATAAGAAATG
CAATGCGACGAATTTATGGAACGAATCAACCTGCACAGGTTACTTTTATTGTTGTTCAAA
AACGTCATCATACAAGATTTTTCCCACTTGATCCGAACTTTACTGAGGGAAAATTCAAAA
ATATCTCACCAGGAACTGTTGTTGATAAAGATATTATGCATCCATTTCAATACCAATTTT
TCATGGCTTCTCATGCTGCTATACAGGGTGTAACAAAACCAACAAAATATTGCATTTTGA
TTAACGAATCGAAGATTGATCCGGACGTTTTACAAGCTATCACATATTCTTTATGTCATT
TGTTTACTCGATGTAATCGTGCTGTCTCTTATCCAGCACCAACTTATTATGCTCATTTAG
TTGCTGCCAGAGGTAAAAATTATATTGTCGGCGAAAGGCTCAATATGGGAAACTTGCAAA
AAGAATTTAATATTCGACAAATTCGACCTGAATTCAATAATAATACACCTATGTTTTTTG
TCTAATTTTTATTTATAAAGTATACAAAATTATAATTTTTTTCAGAAAGGTTTTTGCCTC
ATAAATGGTTTTTCCTTTCTTTTTTTGGAAACATAAATAATATCTTTTAATTCATATTTT
AAGATATTTACATGATTATTTCCACTATATATAAATTATAGTTTCAAAATTTATTTTTTG
TTTTTTTTGCATATTATTCATATATAAATACTAACTTGGTAAAAATAAACATACATACAT
ATATTATTATCTATCTATATTATATATGAAATATTGTTAATAAAAAGATCAGTTGACTGA
TAACTTAAAA
>g34.t2 Gene=g34 Length=213
MIVDLEEIVAQHLHFYKEKNKKLPGKIMYYRDGVSEGQFRQVLDIEMTAIRNAMRRIYGT
NQPAQVTFIVVQKRHHTRFFPLDPNFTEGKFKNISPGTVVDKDIMHPFQYQFFMASHAAI
QGVTKPTKYCILINESKIDPDVLQAITYSLCHLFTRCNRAVSYPAPTYYAHLVAARGKNY
IVGERLNMGNLQKEFNIRQIRPEFNNNTPMFFV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g34.t2 | Gene3D | G3DSA:3.30.420.10 | - | 1 | 213 | 0.000 |
| 2 | g34.t2 | PANTHER | PTHR22891 | EUKARYOTIC TRANSLATION INITIATION FACTOR 2C | 1 | 211 | 0.000 |
| 3 | g34.t2 | PANTHER | PTHR22891:SF66 | PROTEIN ARGONAUTE-2 | 1 | 211 | 0.000 |
| 1 | g34.t2 | Pfam | PF02171 | Piwi domain | 2 | 181 | 0.000 |
| 7 | g34.t2 | ProSiteProfiles | PS50822 | Piwi domain profile. | 1 | 182 | 30.746 |
| 5 | g34.t2 | SMART | SM00950 | Piwi_a_2 | 1 | 182 | 0.000 |
| 4 | g34.t2 | SUPERFAMILY | SSF53098 | Ribonuclease H-like | 2 | 184 | 0.000 |
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:0003676 | nucleic acid 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.
