General information for g763.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as pre-rRNA 2’-O-ribose RNA methyltransferase FTSJ3.
Parent gene
- The parent gene g763 is located on chr_3: 5830328..5831711 (- 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_3 | g763 | g763.t1 | TTS | g763.t1 | 5829077 | 5829077 |
| chr_3 | g763 | g763.t1 | isoform | g763.t1 | 5829119 | 5831711 |
| chr_3 | g763 | g763.t1 | exon | g763.t1.exon1 | 5829119 | 5831574 |
| chr_3 | g763 | g763.t1 | cds | g763.t1.CDS1 | 5829119 | 5831574 |
| chr_3 | g763 | g763.t1 | exon | g763.t1.exon2 | 5831645 | 5831711 |
| chr_3 | g763 | g763.t1 | cds | g763.t1.CDS2 | 5831645 | 5831711 |
| chr_3 | g763 | g763.t1 | TSS | g763.t1 | 5831772 | 5831772 |
Sequences
>g763.t1 Gene=g763 Length=2523
ATGGGAAAGAAAACGAAAATTGGAAAAGATAGGCGAGATAAGTTTTACAAATTAGCTAAA
GAAACAGGATACAGATCGAGAGCTGCATTTAAATTGATTCAATTAAATCGTCGATTTGGA
TTTTTGCAGCAATCTCAAGTATGCGTTGATTTGTGCGCTGCTCCTGGTGGATGGATGCAA
GTAGCAAAACAAAATATGCCAGTTTCAAGTATTGTAATTGGTATCGATTTATTTCCTATC
AAACCAATTGCTGGATGCATGAGTCTTGTTGAAGATATTACAACAGAAAAATGTAAACAA
GCTCTAAGAAAAGAATTAAAGGATTGGAAAGTTGATATAGTTTTGAATGATGGTGCTCCT
AATGTAGGTCGTAATTGGTTATTCGATGCTTATCAACAAATTTGTCTCTCACTGTCAGCA
ACAAAACTTGCATCGGAAATACTTAGACCAAATGGTTGGTTTGTCACTAAAGTATTTAGA
TCAAAAGATTACAATGCCTTCATTTGGGTATTAAAACAACTTTTCAAGAAAGTTTATGCA
ACAAAACCATCTGCATCACGTAAGGAATCTGCTGAAATTTTCGTTGTTTGTCAAGGTTAC
AAAGCTGCTACAAAAATCGATCCTAAATTCTTTGATGCAAAATATGTTTTTGAAGAATTA
GAAATTGAGGCTGCTGCAAAAGCAAGCGATCTTCTCAAAGAACCGAAATTAGATAAGAAA
CAGAAAGCACTTGGATATGACTCAATTGATTTAAGAAAGGTTTTCAAAGCAAGTGAATTT
TTACAAGCAGACAGTGCTCTCGATATTCTTCAAGTCGCCACAGAAATTCAAATTGATGAC
GATAAAATTGCAAATCATAAAGAAACAACTGTTGAAATTAAAGAATGCTTTAAAGATATA
AAAGTTCTTAATCGCAAAGATTTAAAAGATATCATTAAATGGTGGAAATTGTTGAAAGCA
GAATTTTATCCTACACAGAAGAAAGATGATAAAGCAACAGAAGAAAAAGCAACAAAACCA
CTCACTGAAGAAGAGCAAGAAGATTTAGAACTTGACGAAATCGATAAACATATTGAAGAA
TTGAAAATGGAAGAGGTTCGCGATGAAAAACGAAAGAAGAAAAAGGCAAATAAAGAACGT
TCGAAACTTGAGCAGAAATTAGCTTTGAAAATGATTATAAAAGGTGATTCTGGACCTCAA
GAACAACGTGATGATGAAGTTTTTAATTTACATGAAATCAAAAATAAAAATGTTCTTGAT
AAGTTGATGGATGGAGTAAGTCTACCGAAAAAACGTGAACGCAAAAAGAAAGAACAGCCG
AAAATGATTTCTTATGATCAAGATGAATTGCATGATGATGAAGCTCACATTCCAACAATT
ACGAGCGATCAAGAAAGTGATTCGGATGAAATTCAAGAAGATCTTGGCTTGGATGATGAT
GAAGAAGAAGAAGAAGAGAATGATGACTGGTCTCTTCATCCGAATGCAAAAAACGGAGTC
CGAGGAAGCGAAAAACAGGGTATCGCTTCCGGAAAAAATAAGAAAAATCCCCTCATTACT
GATCTTGATTATCGTGACAAAGATGCTAAACGCAATGCAAAAGCACAACTTTGGTTCGAA
AAGGATATTTTTAAAAATATGTCGAAATCAGAAGAAATTGAAGAAGATTTAGATTTAGAT
ACGATGGTTAAAGATTATAAAGAGAAGGGAGTCAAAGTTCTTGGTGAGAATGATGGTATA
AAAACAAATTTATCACAGTTGGGCAAAAAAGCTCGCAGAAGAGCTCGACATGCAGAAAAT
GGTGACAAAGACAAAGCGGAAAGTTCAACTGATGACGATTCAAGTGGCGGTGAAGACAAT
AATGAAGTATCACAATCAGACGATGAGGATTATGAAAAAGCACCGAAAGTCAAAAAAATT
AAACTTAATGAAGAAGAACTTGCACTTGGACAAACGATGATTACGAGTAAAAAGATGAAA
CGTGATCTCATTGATGGTGCTTGGAATCGTTACATGTTCAATGATGAAAATCTTCCTGAT
TGGTTTGTCGAAGATGAAAAGAAGGCTATGCGTAAAGAAATGCCAGTATCTGAAGGTTTA
GTTGAAAATTACCGTAAAAACTTGCAAGAATTCAATACAAGGTCTCTTAAGAAAGTGATG
GAAGCAAAGGCAAGAAAGAAGCGTCAGGCAAAGAGACAATTAGAAAAGATTAAAAAGAAA
GCTGAAACAATTATGGAAAATGCTGACCATACTGGCAACGAAAAGATCAAATTGCTCAAG
AAACTTTATAAGAAAACTGAAAAGAAGAAGGAAAATATTACATATGTTGTAGCAAAGAAA
GCAAATGCATCAGGTAAGAAAGTGCGAAGACCGACAGGTGTAAAAGGTCGATTTAAAGTT
GTTGATCCACGTATGAAGAAGGACTTACGTGCTGAGAAGAAATCTTTTAAAAAAGGTGGA
GGTGGTGGTAAAAGTAAAGGAGCAAAAGGAAATAAGCAAAAGCAAAAGATGTCAAAGAAA
TAA
>g763.t1 Gene=g763 Length=840
MGKKTKIGKDRRDKFYKLAKETGYRSRAAFKLIQLNRRFGFLQQSQVCVDLCAAPGGWMQ
VAKQNMPVSSIVIGIDLFPIKPIAGCMSLVEDITTEKCKQALRKELKDWKVDIVLNDGAP
NVGRNWLFDAYQQICLSLSATKLASEILRPNGWFVTKVFRSKDYNAFIWVLKQLFKKVYA
TKPSASRKESAEIFVVCQGYKAATKIDPKFFDAKYVFEELEIEAAAKASDLLKEPKLDKK
QKALGYDSIDLRKVFKASEFLQADSALDILQVATEIQIDDDKIANHKETTVEIKECFKDI
KVLNRKDLKDIIKWWKLLKAEFYPTQKKDDKATEEKATKPLTEEEQEDLELDEIDKHIEE
LKMEEVRDEKRKKKKANKERSKLEQKLALKMIIKGDSGPQEQRDDEVFNLHEIKNKNVLD
KLMDGVSLPKKRERKKKEQPKMISYDQDELHDDEAHIPTITSDQESDSDEIQEDLGLDDD
EEEEEENDDWSLHPNAKNGVRGSEKQGIASGKNKKNPLITDLDYRDKDAKRNAKAQLWFE
KDIFKNMSKSEEIEEDLDLDTMVKDYKEKGVKVLGENDGIKTNLSQLGKKARRRARHAEN
GDKDKAESSTDDDSSGGEDNNEVSQSDDEDYEKAPKVKKIKLNEEELALGQTMITSKKMK
RDLIDGAWNRYMFNDENLPDWFVEDEKKAMRKEMPVSEGLVENYRKNLQEFNTRSLKKVM
EAKARKKRQAKRQLEKIKKKAETIMENADHTGNEKIKLLKKLYKKTEKKKENITYVVAKK
ANASGKKVRRPTGVKGRFKVVDPRMKKDLRAEKKSFKKGGGGGKSKGAKGNKQKQKMSKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g763.t1 | Coils | Coil | Coil | 344 | 386 | - |
| 20 | g763.t1 | Coils | Coil | Coil | 716 | 751 | - |
| 18 | g763.t1 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 23 | 202 | 7.9E-62 |
| 7 | g763.t1 | Hamap | MF_03163 | AdoMet-dependent rRNA methyltransferase |
1 | 819 | 20.706196 |
| 6 | g763.t1 | Hamap | MF_01547 | Ribosomal RNA large subunit methyltransferase E [rlmE]. | 8 | 201 | 29.246964 |
| 10 | g763.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 328 | 344 | - |
| 11 | g763.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 328 | 348 | - |
| 9 | g763.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 418 | 521 | - |
| 17 | g763.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 418 | 460 | - |
| 12 | g763.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 466 | 489 | - |
| 14 | g763.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 574 | 637 | - |
| 16 | g763.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 595 | 612 | - |
| 15 | g763.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 781 | 840 | - |
| 13 | g763.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 795 | 819 | - |
| 4 | g763.t1 | PANTHER | PTHR10920:SF13 | PRE-RRNA 2’-O-RIBOSE RNA METHYLTRANSFERASE FTSJ3 | 6 | 814 | 1.9E-194 |
| 5 | g763.t1 | PANTHER | PTHR10920 | RIBOSOMAL RNA METHYLTRANSFERASE | 6 | 814 | 1.9E-194 |
| 3 | g763.t1 | Pfam | PF01728 | FtsJ-like methyltransferase | 24 | 200 | 9.4E-56 |
| 2 | g763.t1 | Pfam | PF11861 | Domain of unknown function (DUF3381) | 238 | 385 | 6.0E-33 |
| 1 | g763.t1 | Pfam | PF07780 | Spb1 C-terminal domain | 608 | 815 | 3.1E-64 |
| 8 | g763.t1 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 23 | 201 | 2.42E-34 |
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:0031167 | rRNA methylation | BP |
| GO:0005634 | nucleus | CC |
| GO:0008168 | methyltransferase activity | MF |
| GO:0001510 | RNA methylation | BP |
| GO:0008649 | rRNA methyltransferase activity | MF |
| GO:0032259 | methylation | BP |
| GO:0006364 | rRNA processing | BP |
KEGG
Orthology
- This transcript has been annotated with K14857 (AdoMet-dependent rRNA methyltransferase SPB1 [EC:2.1.1.-])
Pathway
This gene does not belong to any 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.
