Gene loci information

Transcript annotation

  • This transcript has been annotated as pre-rRNA 2’-O-ribose RNA methyltransferase FTSJ3.

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 g763 g763.t4 isoform g763.t4 5830328 5831711
chr_3 g763 g763.t4 exon g763.t4.exon1 5830328 5831457
chr_3 g763 g763.t4 cds g763.t4.CDS1 5830328 5831446
chr_3 g763 g763.t4 exon g763.t4.exon2 5831641 5831711
chr_3 g763 g763.t4 TSS g763.t4 5831772 5831772
chr_3 g763 g763.t4 TTS g763.t4 NA NA

Sequences

>g763.t4 Gene=g763 Length=1201
ATGGGAAAGAAAACGAAAATTGGAAAAGATAGGCGAGATAAGTTTTACAAATTAGCTAAA
GAAACAGGTTTCAAAACAAAATATGCCAGTTTCAAGTATTGTAATTGGTATCGATTTATT
TCCTATCAAACCAATTGCTGGATGCATGAGTCTTGTTGAAGATATTACAACAGAAAAATG
TAAACAAGCTCTAAGAAAAGAATTAAAGGATTGGAAAGTTGATATAGTTTTGAATGATGG
TGCTCCTAATGTAGGTCGTAATTGGTTATTCGATGCTTATCAACAAATTTGTCTCTCACT
GTCAGCAACAAAACTTGCATCGGAAATACTTAGACCAAATGGTTGGTTTGTCACTAAAGT
ATTTAGATCAAAAGATTACAATGCCTTCATTTGGGTATTAAAACAACTTTTCAAGAAAGT
TTATGCAACAAAACCATCTGCATCACGTAAGGAATCTGCTGAAATTTTCGTTGTTTGTCA
AGGTTACAAAGCTGCTACAAAAATCGATCCTAAATTCTTTGATGCAAAATATGTTTTTGA
AGAATTAGAAATTGAGGCTGCTGCAAAAGCAAGCGATCTTCTCAAAGAACCGAAATTAGA
TAAGAAACAGAAAGCACTTGGATATGACTCAATTGATTTAAGAAAGGTTTTCAAAGCAAG
TGAATTTTTACAAGCAGACAGTGCTCTCGATATTCTTCAAGTCGCCACAGAAATTCAAAT
TGATGACGATAAAATTGCAAATCATAAAGAAACAACTGTTGAAATTAAAGAATGCTTTAA
AGATATAAAAGTTCTTAATCGCAAAGATTTAAAAGATATCATTAAATGGTGGAAATTGTT
GAAAGCAGAATTTTATCCTACACAGAAGAAAGATGATAAAGCAACAGAAGAAAAAGCAAC
AAAACCACTCACTGAAGAAGAGCAAGAAGATTTAGAACTTGACGAAATCGATAAACATAT
TGAAGAATTGAAAATGGAAGAGGTTCGCGATGAAAAACGAAAGAAGAAAAAGGCAAATAA
AGAACGTTCGAAACTTGAGCAGAAATTAGCTTTGAAAATGATTATAAAAGGTGATTCTGG
ACCTCAAGAACAACGTGATGATGAAGTTTTTAATTTACATGAAATCAAAAATAAAAATGT
TCTTGATAAGTTGATGGATGGAGTAAGTCTACCGAAAAAACGTGAACGCAAAAAGAAAGA
A

>g763.t4 Gene=g763 Length=373
MPVSSIVIGIDLFPIKPIAGCMSLVEDITTEKCKQALRKELKDWKVDIVLNDGAPNVGRN
WLFDAYQQICLSLSATKLASEILRPNGWFVTKVFRSKDYNAFIWVLKQLFKKVYATKPSA
SRKESAEIFVVCQGYKAATKIDPKFFDAKYVFEELEIEAAAKASDLLKEPKLDKKQKALG
YDSIDLRKVFKASEFLQADSALDILQVATEIQIDDDKIANHKETTVEIKECFKDIKVLNR
KDLKDIIKWWKLLKAEFYPTQKKDDKATEEKATKPLTEEEQEDLELDEIDKHIEELKMEE
VRDEKRKKKKANKERSKLEQKLALKMIIKGDSGPQEQRDDEVFNLHEIKNKNVLDKLMDG
VSLPKKRERKKKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g763.t4 Coils Coil Coil 279 321 -
8 g763.t4 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39 3 142 3.2E-40
6 g763.t4 MobiDBLite mobidb-lite consensus disorder prediction 263 279 -
7 g763.t4 MobiDBLite mobidb-lite consensus disorder prediction 263 283 -
3 g763.t4 PANTHER PTHR10920:SF13 PRE-RRNA 2’-O-RIBOSE RNA METHYLTRANSFERASE FTSJ3 1 358 1.1E-101
4 g763.t4 PANTHER PTHR10920 RIBOSOMAL RNA METHYLTRANSFERASE 1 358 1.1E-101
2 g763.t4 Pfam PF01728 FtsJ-like methyltransferase 6 135 3.4E-34
1 g763.t4 Pfam PF11861 Domain of unknown function (DUF3381) 173 320 1.3E-33
5 g763.t4 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases 5 136 3.91E-19

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:0008168 methyltransferase activity MF
GO:0032259 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. There were no conditions that were differentially expressed