General information for g34.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t3 | isoform | g34.t3 | 357118 | 359260 |
| chr_3 | g34 | g34.t3 | exon | g34.t3.exon1 | 357118 | 357680 |
| chr_3 | g34 | g34.t3 | cds | g34.t3.CDS1 | 357119 | 357680 |
| chr_3 | g34 | g34.t3 | exon | g34.t3.exon2 | 357746 | 358494 |
| chr_3 | g34 | g34.t3 | cds | g34.t3.CDS2 | 357746 | 358347 |
| chr_3 | g34 | g34.t3 | exon | g34.t3.exon3 | 358569 | 358952 |
| chr_3 | g34 | g34.t3 | exon | g34.t3.exon4 | 359254 | 359260 |
| chr_3 | g34 | g34.t3 | TSS | g34.t3 | 359374 | 359374 |
| chr_3 | g34 | g34.t3 | TTS | g34.t3 | NA | NA |
Sequences
>g34.t3 Gene=g34 Length=1703
ATGGGAAAGAAAAAAAATAAGAATCTGTCGGACGAACCCGATAATACACAGCAACAGCAA
ACTGTTGCTACATCTCAACAAACCCAAGCTTCTCAAGTTCCTCAGCAGCAAAAACAGCAG
TCTCAACAACCAAAACAACAAAAGAAGTCACAATCTGATGATTCTCAAACTGCATCGACT
TCTCAACAAAGTCATCAAAAGAAATCACAGCCTCAGCAACAATCAGTTCAATCACAACCT
TCTCAAGAAGGTCAGCAACAGAAACAATCGAAAAAGAAACAACAATCTGGTGATGCACAA
GTTTCTCAAGAGGGCCAACAGCAGCAAAGATATCAATGGAAGGATAAAAAACCAAAAGGT
GATGGCCAAAAACAACAACAACCAGAACATTCGCGGACAACCACAAAGTGCTTGGGGACC
AAAGCAAGGACCACAGTCTCAACGACCTGCAAGTCAATCACAGCAGCAAAGAGAAAAGCA
ACAAACTGGTCCAAGATCATCAACAAGCGGTGTTTCTGTATCATCACTTTCATCTAGCAT
GAAAAAATTGAGTATTGTTCCATATAATGCAAAAATTCCAATTGAAACAAGTCCAGACGG
AAGAGTTTATGAAGGAAAAAAAGGTAGAAAATGCAAAGTTCAAGTCAATTATGGAACAAT
TTCTTTTGATCCAAAGAAATTTCCACAAAAAGCCTATCATTATGACATTAGCTTTGATCC
AAATGCACCTAAAAAAATGTTGCCTTTCGCACTTCGAGCTTTTATGACAAATTATTTTAG
AAACTATTTGTACGGAACTGATGAGCGAAGCAACTTGTATACAAGTCAAAAATTGGCAAT
TAATGGCACAGATATTGAAGTTTACACTAATGAAGCTAAAGCTGTAATGGGAGATCGTAC
CAGAGATTTCAAAGTTACAATCAAATTTGCACGAGAAGTAGATCTTGGTATTTTGTTGAA
TTATCAGAATCCTCAAAATGAAACACTTGATCAGCCTGCAACTGCTGTTCAAGTACTTGA
CATTATTCTAAGATCAGCATTCAATAATTTATTAGCTGAAAATCGAGCAGTGCGTGCTGG
TAGACAAGTCTTTTTTGTTCCTCCTAAGCAAATGCCTCTAGGTGATGGAATGGAATTATG
GTATGGACTTTTCCAATCAGCAATATTGGGTCGCAGTAGATTGTATTTAAATGTGGATGT
TTTACATAAAGCATTTCCAAGCCAAATGCTTGTTCTTGACTATCTTGCATCAATTTGTCG
TGATGGTAGAGTTCCACAAAGATTAGATGAAAGAAGTGGAGAATTCAGACAACTTAAAGA
ATTTCTCTCAATGCTTTCAATCCAATATAGAACAAAAGATAATGAACCATTTAAAACATA
CGGTGTTAATGGGCTTATTGGAAGTTCAAGACAAGAAAGATTTGAACAAGATGGCAGATC
AATGTCGGTTGAAGAATATTATCGAAACTTTAAAAATATCAATTTGAGATTTCCCGATTT
GCCATGTTTATGGGTTGGAAGTCGACAAAGAAGAATTGCTCTTCCTATGGAATTTTGCTA
CATTCCACCAGGTCAAGCGACAAACAAGAAATGTTCAAGTCGAACTGTCGCTGAAATTAT
CAGGTATTCTGCTACAACTACTGATGACAGAAAGAGAAAAATATTGGATCTACTTCGACA
AATCAACTATGCAAATGATCCAA
>g34.t3 Gene=g34 Length=388
MKKLSIVPYNAKIPIETSPDGRVYEGKKGRKCKVQVNYGTISFDPKKFPQKAYHYDISFD
PNAPKKMLPFALRAFMTNYFRNYLYGTDERSNLYTSQKLAINGTDIEVYTNEAKAVMGDR
TRDFKVTIKFAREVDLGILLNYQNPQNETLDQPATAVQVLDIILRSAFNNLLAENRAVRA
GRQVFFVPPKQMPLGDGMELWYGLFQSAILGRSRLYLNVDVLHKAFPSQMLVLDYLASIC
RDGRVPQRLDERSGEFRQLKEFLSMLSIQYRTKDNEPFKTYGVNGLIGSSRQERFEQDGR
SMSVEEYYRNFKNINLRFPDLPCLWVGSRQRRIALPMEFCYIPPGQATNKKCSSRTVAEI
IRYSATTTDDRKRKILDLLRQINYANDP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g34.t3 | CDD | cd02846 | PAZ_argonaute_like | 232 | 342 | 0.00000 |
| 9 | g34.t3 | Gene3D | G3DSA:2.170.260.10 | paz domain | 228 | 350 | 0.00000 |
| 4 | g34.t3 | PANTHER | PTHR22891 | EUKARYOTIC TRANSLATION INITIATION FACTOR 2C | 10 | 388 | 0.00000 |
| 5 | g34.t3 | PANTHER | PTHR22891:SF66 | PROTEIN ARGONAUTE-2 | 10 | 388 | 0.00000 |
| 3 | g34.t3 | Pfam | PF16486 | N-terminal domain of argonaute | 30 | 164 | 0.00000 |
| 2 | g34.t3 | Pfam | PF08699 | Argonaute linker 1 domain | 183 | 227 | 0.00000 |
| 1 | g34.t3 | Pfam | PF02170 | PAZ domain | 236 | 356 | 0.00000 |
| 10 | g34.t3 | ProSiteProfiles | PS50821 | PAZ domain profile. | 275 | 344 | 16.89700 |
| 7 | g34.t3 | SMART | SM01163 | DUF1785_2 | 178 | 229 | 0.00000 |
| 8 | g34.t3 | SMART | SM00949 | PAZ_2_a_3 | 230 | 366 | 0.00049 |
| 6 | g34.t3 | SUPERFAMILY | SSF101690 | PAZ domain | 225 | 384 | 0.00000 |
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.
