General information for g5611.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as histone-arginine N-methyltransferase.
Parent gene
- The parent gene g5611 is located on chr_2: 10602803..10603766 (+ 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 | g5611 | g5611.t4 | isoform | g5611.t4 | 10602803 | 10603766 |
| chr_2 | g5611 | g5611.t4 | exon | g5611.t4.exon1 | 10602803 | 10603517 |
| chr_2 | g5611 | g5611.t4 | cds | g5611.t4.CDS1 | 10602821 | 10603517 |
| chr_2 | g5611 | g5611.t4 | exon | g5611.t4.exon2 | 10603576 | 10603766 |
| chr_2 | g5611 | g5611.t4 | cds | g5611.t4.CDS2 | 10603576 | 10603766 |
| chr_2 | g5611 | g5611.t4 | TTS | g5611.t4 | 10603860 | 10603860 |
| chr_2 | g5611 | g5611.t4 | TSS | g5611.t4 | NA | NA |
Sequences
>g5611.t4 Gene=g5611 Length=906
GAAGCCGCTTTGATAGATATGGTTTCTGAAAATGATAAATCTGCAAAAACAATTATATTA
ATGATTGTTGGCTGTGGTAGAGGACCTTTAATAAGAGCTGCACTTAATGCAAGTGAAAAT
ACAAAGAGAAAAATAAAAATTTTGGCTGTTGAAAAAAATCCTGGAGCAATTGTCGTCTTG
AAATGTATGATAAGAGACTTATGGAGTAATAAAGATATTACTCTTATATCTAAAGACATG
CGAAATATGGAATTGGAAGAGAAAGTAGATATTATAGTGTCTGAATTGATGGGTTCATTT
GGTGATAACGAATTATCTCCAGAATGTCTCGATGGTGTGCAGCATTTATTGAAACCAACA
GGAATAAGCATACCACAAAATTCAAAGTCATACTTGCAACCCATTATGAATAAGCGAATC
TATGGAATAATTCAAAAGAAATCAGATAATCATAATACATCACGATCAGAATATAGTGAA
CCAACTGAGATCAATTGGCTTTCGTATATGTCAAATATATTTCATATTGATGAAGTAAAA
GAGTTATTTACCTTTGTTCATCCCAACAAAGATGTTCCAATTGATAACAGTCGTAATGGT
ACTCTACTATTTAAATCTGAAGTTAACTGCGTGCTTCATGGATTCGCTGGATATTTTACT
TCTCAATTATATAAAGACATTGAAATATCAATTCATCCTTTAACACACACTAAAGGTATG
GGATCTTGGTATAGCATGTTCTTTCCGATTTCAAAAATAATTCAATTGAATCCTAATGAT
GAAATAGAAATTGAATTTTGGCGTAAAATTGATACGAAGAAAGTTTGGTATGAGTGGAGA
GTTAATAAACCAATTTTTAGCAATGTCCATAATGCTAATGGTGACATTCATCCGATTTGG
CTTTAA
>g5611.t4 Gene=g5611 Length=295
MVSENDKSAKTIILMIVGCGRGPLIRAALNASENTKRKIKILAVEKNPGAIVVLKCMIRD
LWSNKDITLISKDMRNMELEEKVDIIVSELMGSFGDNELSPECLDGVQHLLKPTGISIPQ
NSKSYLQPIMNKRIYGIIQKKSDNHNTSRSEYSEPTEINWLSYMSNIFHIDEVKELFTFV
HPNKDVPIDNSRNGTLLFKSEVNCVLHGFAGYFTSQLYKDIEISIHPLTHTKGMGSWYSM
FFPISKIIQLNPNDEIEIEFWRKIDTKKVWYEWRVNKPIFSNVHNANGDIHPIWL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g5611.t4 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 1 | 120 | 0.000 |
| 5 | g5611.t4 | Gene3D | G3DSA:2.70.160.11 | - | 123 | 295 | 0.000 |
| 3 | g5611.t4 | PANTHER | PTHR10738 | PROTEIN ARGININE N-METHYLTRANSFERASE 5 | 2 | 289 | 0.000 |
| 1 | g5611.t4 | Pfam | PF05185 | PRMT5 arginine-N-methyltransferase | 4 | 118 | 0.000 |
| 2 | g5611.t4 | Pfam | PF17286 | PRMT5 oligomerisation domain | 122 | 282 | 0.000 |
| 7 | g5611.t4 | ProSiteProfiles | PS51678 | SAM-dependent methyltransferase PRMT-type domain profile. | 1 | 273 | 55.487 |
| 4 | g5611.t4 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 17 | 288 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5611/g5611.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5611.t4.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0008168 | methyltransferase activity | MF |
| GO:0035246 | peptidyl-arginine N-methylation | BP |
| GO:0006479 | protein methylation | BP |
| GO:0016274 | protein-arginine N-methyltransferase activity | MF |
| GO:0018216 | peptidyl-arginine methylation | BP |
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.
