Gene loci information

Transcript annotation

  • This transcript has been annotated as histone-arginine N-methyltransferase.

Parent gene

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.t1 TSS g5611.t1 10601615 10601615
chr_2 g5611 g5611.t1 isoform g5611.t1 10601696 10603766
chr_2 g5611 g5611.t1 exon g5611.t1.exon1 10601696 10601749
chr_2 g5611 g5611.t1 cds g5611.t1.CDS1 10601696 10601749
chr_2 g5611 g5611.t1 exon g5611.t1.exon2 10601810 10602479
chr_2 g5611 g5611.t1 cds g5611.t1.CDS2 10601810 10602479
chr_2 g5611 g5611.t1 exon g5611.t1.exon3 10602552 10603517
chr_2 g5611 g5611.t1 cds g5611.t1.CDS3 10602552 10603517
chr_2 g5611 g5611.t1 exon g5611.t1.exon4 10603576 10603766
chr_2 g5611 g5611.t1 cds g5611.t1.CDS4 10603576 10603766
chr_2 g5611 g5611.t1 TTS g5611.t1 10603860 10603860

Sequences

>g5611.t1 Gene=g5611 Length=1881
ATGGGTAAACAACCAGAATTTCACTTAAAGATCAATGAATGTTCGGATTTACAAGAGACA
TTTACAATTGCAAAATCAAAAAAATGCACATCACTTGTTACAAAAATTACAAATGATGAA
ATCAAATCATCTCCATTAAATGACAATAGTTCAGAATGTTTTGTACGATCACCATTAATT
TTAACTGCTTCACAATGGGTTGATGTTCTTCCAATCGTTACATTTTCTTCTTGTTTGAGT
TCACAAAATGATTTTATAAAGGAAGAATGTGAACAAAATATTTTGCAGCAAATAACTTTT
ATACATTATTTGAAAAGTGGAACCGGAGTTAAAATTTATATAGAACCAGCCGATTGCGAT
GCAGCTACAATAGCAAAAGTTTTGATGAAAATTTTGAGCAACAAAGCATACAAAGATATC
ATGTTTGTTATTGAAATCAATATTTTTGATTCAAGAAATACTGCTAATATGTATAGAAGT
GATTTAACTGATGAACAACGAGATACAGAATTCGATTCATGGAAATTTTGGAACGAATTG
CATATGAAAACAAATTATAGTAATCAAATTGAAGTGGCTCTTGTGATCAACTCGAATTTA
CCAAGTGATGATACTTTGATTTATCGATGGTTGGCCGAAACTGTTGATATGCTCGTCATT
CCTCATAATTCATTTATAACTAACAAATCAAACTACCCTATTATGACTAAACGTCACCAA
GATGTGATTCGAAAATTTCTAAGTTACACTACCAACTCTATAACGATTGAACCAAAATCA
ATTCTCGATAATCGCATTGACTTTTATATTGATTATATCATCCATCAATCTGGATTTGTC
AATTTCAATGAACATTCAAATTATAGAGATTCACTTCGATATCCTCTTCAACCTCTTTAT
GACAACTTGGATAATATGACATATGAAGTATTCGAAAAAGATCCAGCTAAATATATTCTC
TATCAACGTGCAATTGAAGCCGCTTTGATAGATATGGTTTCTGAAAATGATAAATCTGCA
AAAACAATTATATTAATGATTGTTGGCTGTGGTAGAGGACCTTTAATAAGAGCTGCACTT
AATGCAAGTGAAAATACAAAGAGAAAAATAAAAATTTTGGCTGTTGAAAAAAATCCTGGA
GCAATTGTCGTCTTGAAATGTATGATAAGAGACTTATGGAGTAATAAAGATATTACTCTT
ATATCTAAAGACATGCGAAATATGGAATTGGAAGAGAAAGTAGATATTATAGTGTCTGAA
TTGATGGGTTCATTTGGTGATAACGAATTATCTCCAGAATGTCTCGATGGTGTGCAGCAT
TTATTGAAACCAACAGGAATAAGCATACCACAAAATTCAAAGTCATACTTGCAACCCATT
ATGAATAAGCGAATCTATGGAATAATTCAAAAGAAATCAGATAATCATAATACATCACGA
TCAGAATATAGTGAACCAACTGAGATCAATTGGCTTTCGTATATGTCAAATATATTTCAT
ATTGATGAAGTAAAAGAGTTATTTACCTTTGTTCATCCCAACAAAGATGTTCCAATTGAT
AACAGTCGTAATGGTACTCTACTATTTAAATCTGAAGTTAACTGCGTGCTTCATGGATTC
GCTGGATATTTTACTTCTCAATTATATAAAGACATTGAAATATCAATTCATCCTTTAACA
CACACTAAAGGTATGGGATCTTGGTATAGCATGTTCTTTCCGATTTCAAAAATAATTCAA
TTGAATCCTAATGATGAAATAGAAATTGAATTTTGGCGTAAAATTGATACGAAGAAAGTT
TGGTATGAGTGGAGAGTTAATAAACCAATTTTTAGCAATGTCCATAATGCTAATGGTGAC
ATTCATCCGATTTGGCTTTAA

>g5611.t1 Gene=g5611 Length=626
MGKQPEFHLKINECSDLQETFTIAKSKKCTSLVTKITNDEIKSSPLNDNSSECFVRSPLI
LTASQWVDVLPIVTFSSCLSSQNDFIKEECEQNILQQITFIHYLKSGTGVKIYIEPADCD
AATIAKVLMKILSNKAYKDIMFVIEINIFDSRNTANMYRSDLTDEQRDTEFDSWKFWNEL
HMKTNYSNQIEVALVINSNLPSDDTLIYRWLAETVDMLVIPHNSFITNKSNYPIMTKRHQ
DVIRKFLSYTTNSITIEPKSILDNRIDFYIDYIIHQSGFVNFNEHSNYRDSLRYPLQPLY
DNLDNMTYEVFEKDPAKYILYQRAIEAALIDMVSENDKSAKTIILMIVGCGRGPLIRAAL
NASENTKRKIKILAVEKNPGAIVVLKCMIRDLWSNKDITLISKDMRNMELEEKVDIIVSE
LMGSFGDNELSPECLDGVQHLLKPTGISIPQNSKSYLQPIMNKRIYGIIQKKSDNHNTSR
SEYSEPTEINWLSYMSNIFHIDEVKELFTFVHPNKDVPIDNSRNGTLLFKSEVNCVLHGF
AGYFTSQLYKDIEISIHPLTHTKGMGSWYSMFFPISKIIQLNPNDEIEIEFWRKIDTKKV
WYEWRVNKPIFSNVHNANGDIHPIWL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g5611.t1 Gene3D G3DSA:3.20.20.150 - 2 276 0.000
7 g5611.t1 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39 277 451 0.000
6 g5611.t1 Gene3D G3DSA:2.70.160.11 - 454 626 0.000
4 g5611.t1 PANTHER PTHR10738 PROTEIN ARGININE N-METHYLTRANSFERASE 5 13 620 0.000
10 g5611.t1 PIRSF PIRSF015894 PRMT5 3 624 0.000
2 g5611.t1 Pfam PF17285 PRMT5 TIM barrel domain 31 273 0.000
1 g5611.t1 Pfam PF05185 PRMT5 arginine-N-methyltransferase 285 449 0.000
3 g5611.t1 Pfam PF17286 PRMT5 oligomerisation domain 453 612 0.000
9 g5611.t1 ProSiteProfiles PS51678 SAM-dependent methyltransferase PRMT-type domain profile. 292 604 64.327
5 g5611.t1 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases 308 619 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.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5611.t1.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

Pathway

  • This transcript belongs to the following pathways

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.

Raw TPM values