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.t3 isoform g763.t3 5830328 5831569
chr_3 g763 g763.t3 exon g763.t3.exon1 5830328 5831569
chr_3 g763 g763.t3 cds g763.t3.CDS1 5830328 5831467
chr_3 g763 g763.t3 TSS g763.t3 5831772 5831772
chr_3 g763 g763.t3 TTS g763.t3 NA NA

Sequences

>g763.t3 Gene=g763 Length=1242
AGATCGAGAGCTGCATTTAAATTGATTCAATTAAATCGTCGATTTGGATTTTTGCAGCAA
TCTCAAGTATGCGTTGATTTGTGCGCTGCTCCTGGTGGATGGATGCAAGTAGCAAAACAA
AATATGCCAGTTTCAAGTATTGTAATTGGTATCGATTTATTTCCTATCAAACCAATTGCT
GGATGCATGAGTCTTGTTGAAGATATTACAACAGAAAAATGTAAACAAGCTCTAAGAAAA
GAATTAAAGGATTGGAAAGTTGATATAGTTTTGAATGATGGTGCTCCTAATGTAGGTCGT
AATTGGTTATTCGATGCTTATCAACAAATTTGTCTCTCACTGTCAGCAACAAAACTTGCA
TCGGAAATACTTAGACCAAATGGTTGGTTTGTCACTAAAGTATTTAGATCAAAAGATTAC
AATGCCTTCATTTGGGTATTAAAACAACTTTTCAAGAAAGTTTATGCAACAAAACCATCT
GCATCACGTAAGGAATCTGCTGAAATTTTCGTTGTTTGTCAAGGTTACAAAGCTGCTACA
AAAATCGATCCTAAATTCTTTGATGCAAAATATGTTTTTGAAGAATTAGAAATTGAGGCT
GCTGCAAAAGCAAGCGATCTTCTCAAAGAACCGAAATTAGATAAGAAACAGAAAGCACTT
GGATATGACTCAATTGATTTAAGAAAGGTTTTCAAAGCAAGTGAATTTTTACAAGCAGAC
AGTGCTCTCGATATTCTTCAAGTCGCCACAGAAATTCAAATTGATGACGATAAAATTGCA
AATCATAAAGAAACAACTGTTGAAATTAAAGAATGCTTTAAAGATATAAAAGTTCTTAAT
CGCAAAGATTTAAAAGATATCATTAAATGGTGGAAATTGTTGAAAGCAGAATTTTATCCT
ACACAGAAGAAAGATGATAAAGCAACAGAAGAAAAAGCAACAAAACCACTCACTGAAGAA
GAGCAAGAAGATTTAGAACTTGACGAAATCGATAAACATATTGAAGAATTGAAAATGGAA
GAGGTTCGCGATGAAAAACGAAAGAAGAAAAAGGCAAATAAAGAACGTTCGAAACTTGAG
CAGAAATTAGCTTTGAAAATGATTATAAAAGGTGATTCTGGACCTCAAGAACAACGTGAT
GATGAAGTTTTTAATTTACATGAAATCAAAAATAAAAATGTTCTTGATAAGTTGATGGAT
GGAGTAAGTCTACCGAAAAAACGTGAACGCAAAAAGAAAGAA

>g763.t3 Gene=g763 Length=380
MQVAKQNMPVSSIVIGIDLFPIKPIAGCMSLVEDITTEKCKQALRKELKDWKVDIVLNDG
APNVGRNWLFDAYQQICLSLSATKLASEILRPNGWFVTKVFRSKDYNAFIWVLKQLFKKV
YATKPSASRKESAEIFVVCQGYKAATKIDPKFFDAKYVFEELEIEAAAKASDLLKEPKLD
KKQKALGYDSIDLRKVFKASEFLQADSALDILQVATEIQIDDDKIANHKETTVEIKECFK
DIKVLNRKDLKDIIKWWKLLKAEFYPTQKKDDKATEEKATKPLTEEEQEDLELDEIDKHI
EELKMEEVRDEKRKKKKANKERSKLEQKLALKMIIKGDSGPQEQRDDEVFNLHEIKNKNV
LDKLMDGVSLPKKRERKKKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g763.t3 Coils Coil Coil 286 328 -
8 g763.t3 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39 1 149 5.2E-41
6 g763.t3 MobiDBLite mobidb-lite consensus disorder prediction 270 286 -
7 g763.t3 MobiDBLite mobidb-lite consensus disorder prediction 270 290 -
3 g763.t3 PANTHER PTHR10920:SF13 PRE-RRNA 2’-O-RIBOSE RNA METHYLTRANSFERASE FTSJ3 1 365 7.4E-106
4 g763.t3 PANTHER PTHR10920 RIBOSOMAL RNA METHYLTRANSFERASE 1 365 7.4E-106
2 g763.t3 Pfam PF01728 FtsJ-like methyltransferase 2 142 4.1E-36
1 g763.t3 Pfam PF11861 Domain of unknown function (DUF3381) 180 327 1.4E-33
5 g763.t3 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases 3 143 7.32E-20

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