Gene loci information

Transcript annotation

  • This transcript has been annotated as tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A.

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_1 g13664 g13664.t1 TTS g13664.t1 31465548 31465548
chr_1 g13664 g13664.t1 isoform g13664.t1 31465630 31466626
chr_1 g13664 g13664.t1 exon g13664.t1.exon1 31465630 31466448
chr_1 g13664 g13664.t1 cds g13664.t1.CDS1 31465630 31466448
chr_1 g13664 g13664.t1 exon g13664.t1.exon2 31466504 31466626
chr_1 g13664 g13664.t1 cds g13664.t1.CDS2 31466504 31466626
chr_1 g13664 g13664.t1 TSS g13664.t1 31466692 31466692

Sequences

>g13664.t1 Gene=g13664 Length=942
ATGAGTTTTACAAAACCGGAAAGAGTGATAAATGAAGGAGACACTGTAATCCTTTACATC
ACAATAAATAACATGCATGCAATTGAAGTAAAATCACATACTACAAATAAACATGGTCAA
AAGGTAGAATATGTACATCAAACAGCATATGGAGCACTTAAAGTGCAAAGTCTCATTGGA
AAGGAATATGGTACAAAAATTCATCTACCAAAAGGATATGCTTTCATACTTCAGATGAAT
CCTGAATTGTGGACAATGAGTTTGCCACACCGCACACAAATTCTCTATACACCTGATATT
TCAATGATTTTAATGCAATTAGAAATTCAACCTAGTTCTGTTATTATTGAAGCTGGTACA
GGCTCTGGTTCGTTATCTCATTATTTTTTAAGAGCAATTTATGGCAAAGGACATTTATAC
ACATTCGATTTTCATGAAAGTAGAGTTGATCAGGCGAGAGAAGAGTTTCAAAAACATGGT
TTTGGCAACTTTGTAACAGCACAACATCGTGATGTGGTCTCTGATGGATTTACTGATGAT
TTAAATGGTAAAGCAGATGCAATTTTTCTAGATCTCCCAGCACCTTACAAAGCAATCGAT
CATGTAGTTAAAGCATTAAAGCCAAGCGGAGGAAGATTTTGTGCATTCAGTCCATGTATT
GAGCAGACTCAAGAAACCTGTCTTCAACTTGAAAAGTATGGCTTTCTTGAAATTCATACA
ATTGAAATTCTTCAATCAGAACATATTGTTAGGGAAAAAAATATTCCCGTTATGGATCTA
TCATTTGTTAAACAAAAACGAGAAGATACTGAATCAAAACTTCCAAAAAGAGATGAAAAG
AGACCGCAACTGCCAACTCGTAAAATTTTGACAACATTAAACACACCAATTCAACAAGGT
CATACTGGATATTTAACATTTGCCACTTTCTTAAGAATTTGA

>g13664.t1 Gene=g13664 Length=313
MSFTKPERVINEGDTVILYITINNMHAIEVKSHTTNKHGQKVEYVHQTAYGALKVQSLIG
KEYGTKIHLPKGYAFILQMNPELWTMSLPHRTQILYTPDISMILMQLEIQPSSVIIEAGT
GSGSLSHYFLRAIYGKGHLYTFDFHESRVDQAREEFQKHGFGNFVTAQHRDVVSDGFTDD
LNGKADAIFLDLPAPYKAIDHVVKALKPSGGRFCAFSPCIEQTQETCLQLEKYGFLEIHT
IEILQSEHIVREKNIPVMDLSFVKQKREDTESKLPKRDEKRPQLPTRKILTTLNTPIQQG
HTGYLTFATFLRI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g13664.t1 CDD cd02440 AdoMet_MTases 115 213 0.0000108
5 g13664.t1 Gene3D G3DSA:3.10.330.20 - 1 79 0.0000000
6 g13664.t1 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39 81 311 0.0000000
2 g13664.t1 PANTHER PTHR12133 TRNA (ADENINE(58)-N(1))-METHYLTRANSFERASE 1 311 0.0000000
3 g13664.t1 PANTHER PTHR12133:SF2 TRNA (ADENINE(58)-N(1))-METHYLTRANSFERASE CATALYTIC SUBUNIT TRMT61A 1 311 0.0000000
8 g13664.t1 PIRSF PIRSF017269 GCD14 3 312 0.0000000
1 g13664.t1 Pfam PF08704 tRNA methyltransferase complex GCD14 subunit 72 309 0.0000000
7 g13664.t1 ProSiteProfiles PS51620 tRNA (adenine(57)-N(1)/adenine(58)-N(1) or adenine(58)-N(1)) (EC 2.1.1.219 or EC 2.1.1.220) family profile. 13 311 87.0060000
4 g13664.t1 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases 9 309 0.0000000

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:0031515 tRNA (m1A) methyltransferase complex CC
GO:0030488 tRNA methylation BP
GO:0016429 tRNA (adenine-N1-)-methyltransferase activity MF

KEGG

Orthology

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.

Raw TPM values