Gene loci information

Transcript annotation

  • This transcript has been annotated as rRNA 2’-O-methyltransferase fibrillarin.

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_3 g2045 g2045.t15 TTS g2045.t15 14816239 14816239
chr_3 g2045 g2045.t15 isoform g2045.t15 14816462 14818149
chr_3 g2045 g2045.t15 exon g2045.t15.exon1 14816462 14817049
chr_3 g2045 g2045.t15 cds g2045.t15.CDS1 14816462 14817049
chr_3 g2045 g2045.t15 exon g2045.t15.exon2 14817320 14817462
chr_3 g2045 g2045.t15 cds g2045.t15.CDS2 14817320 14817439
chr_3 g2045 g2045.t15 exon g2045.t15.exon3 14817526 14817586
chr_3 g2045 g2045.t15 exon g2045.t15.exon4 14817650 14817704
chr_3 g2045 g2045.t15 exon g2045.t15.exon5 14817780 14818149
chr_3 g2045 g2045.t15 TSS g2045.t15 14818268 14818268

Sequences

>g2045.t15 Gene=g2045 Length=1217
ATGGGAAGACCGCGTAAGTATAAGTTTAAGTGAATTAATTTAAAATTATCGTGAAAAATG
AAACTAAATAAATATTGTAAACTTCCATGCGGCTTTTTTAAAAAAATGGAAGATTTCATA
AATGAAATATTTTCTAAATAAAATAAAAGTCACTTGTCTTTATTTATTTCATCTTTTATT
TAAAGAATGAATATATTAAAAAGATTTTGTTAAAAATGATTTCATTTAAAAAATGCTTGA
AAATTTGTTTATCAACAATTTTATAAATTTTTTTCATTTTTAACATTTTTCAGCATTCAC
TCCAAGAGGTGGTGGAGGACGCGGAGGAAATAGAGGAGGCGGTGGCAGAGGTGGTGGATT
CAAGCCAAGAGGTGGTGGTGGAAGAGGTGGATTCAAAGGTGCTGATCGTGGCGGTGGACG
CGTAAGGAAGAGGAGGACCAAGAGGAGGAGGAAGAGGCGGCCGTGGTGGTGGTGGAGCAA
AAGGCGGTTTTAAAGGTGGCAAAACTGTTATGGTTGAGCCTCATCGACATGCAGGAATTT
TTGTTGCTCGTGGAAAAGAGGATGCACTTGTTACATTAAATCTTGTACCTGGCTCAGAAG
TATATGGAGAAAAACGTATTTCTGTAGAAACTGATGGTGAGAAAAAAGAATATCGTGTTT
GGAATCCATTCAGATCAAAGTTAGCAGCAGCTATTCTCGGTGGAGTTGAAGAAATCTATA
TAGCACCAGGTTCAAAGGTTTTATATCTTGGTGCAGCTTCAGGAACCACTGTTAGTCATG
TGAGTGATGTTGTTGGTCCTGAAGGTCTCGTTTATGCAGTAGAATTCTCTCATCGTTCCG
GTCGTGATCTTATAAATGTTGCCAAGAAACGAACCAACATTATTCCAATCATTGAAGATG
CTCGACATCCACACAAATATCGAATGTTAGTAGGAATGGTTGATACCATTTTTGCGGATG
TTGCTCAACCCGATCAGGCTCGTATTGTGATACTTAATGCACAAAACTTTCTCAAAACGG
GCGGGCATTTTGTTATTTCCATCAAAGCATCTTGTATTGATTCAACAGCCAAACCTGAAG
CTGTATTCGCATCAGAAGTTGATAAACTCAAAGCTGAAAAATTGAAACCTCTAGAACAAG
TGACATTAGAACCTTATGAAAGAGATCACGCAGTTGTTTGTGGAGTTTTTAGACCACCAG
AAAAGAAAAAGAACTAA

>g2045.t15 Gene=g2045 Length=235
MVEPHRHAGIFVARGKEDALVTLNLVPGSEVYGEKRISVETDGEKKEYRVWNPFRSKLAA
AILGGVEEIYIAPGSKVLYLGAASGTTVSHVSDVVGPEGLVYAVEFSHRSGRDLINVAKK
RTNIIPIIEDARHPHKYRMLVGMVDTIFADVAQPDQARIVILNAQNFLKTGGHFVISIKA
SCIDSTAKPEAVFASEVDKLKAEKLKPLEQVTLEPYERDHAVVCGVFRPPEKKKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g2045.t15 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 1 51 4.4E-26
14 g2045.t15 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39 52 229 6.7E-90
4 g2045.t15 Hamap MF_00351 Fibrillarin-like rRNA/tRNA 2’-O-methyltransferase [flpA]. 16 228 38.475529
2 g2045.t15 PANTHER PTHR10335:SF6 RRNA/TRNA 2’-O-METHYLTRANSFERASE FIBRILLARIN-LIKE PROTEIN 1 2 233 8.6E-132
3 g2045.t15 PANTHER PTHR10335 RRNA 2-O-METHYLTRANSFERASE FIBRILLARIN 2 233 8.6E-132
15 g2045.t15 PIRSF PIRSF006540 Nop17p 1 231 7.5E-118
10 g2045.t15 PRINTS PR00052 Fibrillarin signature 20 39 4.3E-90
7 g2045.t15 PRINTS PR00052 Fibrillarin signature 47 66 4.3E-90
6 g2045.t15 PRINTS PR00052 Fibrillarin signature 74 95 4.3E-90
9 g2045.t15 PRINTS PR00052 Fibrillarin signature 99 116 4.3E-90
8 g2045.t15 PRINTS PR00052 Fibrillarin signature 124 153 4.3E-90
5 g2045.t15 PRINTS PR00052 Fibrillarin signature 154 183 4.3E-90
11 g2045.t15 PRINTS PR00052 Fibrillarin signature 206 227 4.3E-90
1 g2045.t15 Pfam PF01269 Fibrillarin 2 228 8.0E-109
16 g2045.t15 ProSitePatterns PS00566 Fibrillarin signature. 99 113 -
17 g2045.t15 SMART SM01206 Fibrillarin_2 2 229 9.4E-173
12 g2045.t15 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases 2 227 1.14E-50

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:0003723 RNA binding MF
GO:0008168 methyltransferase activity MF
GO:0006364 rRNA processing 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. There were no conditions that were differentially expressed