Gene loci information

Transcript annotation

  • This transcript has been annotated as RNA cytidine acetyltransferase.

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 g2446 g2446.t4 isoform g2446.t4 18016328 18017723
chr_3 g2446 g2446.t4 exon g2446.t4.exon1 18016328 18017175
chr_3 g2446 g2446.t4 cds g2446.t4.CDS1 18016330 18017175
chr_3 g2446 g2446.t4 exon g2446.t4.exon2 18017238 18017397
chr_3 g2446 g2446.t4 cds g2446.t4.CDS2 18017238 18017397
chr_3 g2446 g2446.t4 exon g2446.t4.exon3 18017464 18017723
chr_3 g2446 g2446.t4 cds g2446.t4.CDS3 18017464 18017540
chr_3 g2446 g2446.t4 TSS g2446.t4 18017792 18017792
chr_3 g2446 g2446.t4 TTS g2446.t4 NA NA

Sequences

>g2446.t4 Gene=g2446 Length=1268
ATGGTGAAGAAAAAGATTGATAATCGTATTCGAGTGATGATTGAGAATGGAGTAAAGTTG
AAGCATCGAACAATGTTTGTTGTAGTTGGTGATAAAGCAAGAGATCAGGTAAATTCTCAA
AAAAATCAAGCATGACTTTATGCGTTAAACAAAATGTCTTTATAGGTGCCTATTCTTTAT
GATATGCTCGTAAAATCATCTGTTAAAGCGAGACCTACTGTATTATGGTGTTATAAGAAT
AAAGATGAAGCTATTTCAAATCATGGTCGTAAAAAAGCAAAAAAGATTCAATCTGGAAAA
ATTAATATTGAGGAAGCAGATCTCTTTGATGTATTTCGTTGTTCAACTACAATTCATGGA
AAATATTACAAGGATTCTCATCAAATTTTGGGTCGCACATATGGAGTTTGTGTATTACAG
GATTTCGAGGCGCTTACACCAAATCTTCTTGCAAGAACAGTTGAAACTGTTGAAGGAGGT
GGTTTAATTATTTTGCTGTTAAAGACAATTTCATCTCTAAAACAACTTTATACGATGAAT
ATGGATATTCACAAAAGATATAGAACTGAATCACATCAAGAAATAAAATGTCGTTTCAAC
GAAAGATTAATCTTATCATTAGCTGATTGTGATCGCTGTTTGCTAGTTAATGATAGTCTT
ACTGTTCTTCCTTTAAGCCAAATAACAGCAAACGTTGAGCCTATCAACGTTGGTGAAATT
GTTAAATCACAAAATGATATACAGCTTGAGGAATTAAAAGAATCATTGCGAGATACTCCT
CCTGCTGGTCCATTAATAAATTTATGCAAGACTTTTGATCAAGCAAAAGCAGTTGCTCAA
TTCATTGATTCATTGGCAGAAAAACAATTGAAACCTCCAACATCGTTGACAGCTGCGAGA
GGAAGAGGAAAATCCGCTGCAATGGGACTTGCAGTCGCTGGTGCTATCTCATTTGGTTAT
AGTCAAATTTATGTTACATCTCCATCACCTGAGAATTTAATCACATTTTTTGAATTCATC
ATGAAAGGTTTTGATGTTTTAGCTTATCAAGAGCATCTCGATTACACTATCATAAGATCA
ACAAATCCAGATTTCAATAAAGCAATTGTTCGTATAAATTTAACAAGAAATAATCGGCAA
ACTATTCAATACATTTCACCTAATGATTCTCATCTATTAAATGCTGCTGATTTATTGGTC
ATCGATGAAGCTGCTGCGATCCCCTTACCGCTTGTAAAATCAATGCTCGGACCATACCTT
GTTTTCAT

>g2446.t4 Gene=g2446 Length=361
MLVKSSVKARPTVLWCYKNKDEAISNHGRKKAKKIQSGKINIEEADLFDVFRCSTTIHGK
YYKDSHQILGRTYGVCVLQDFEALTPNLLARTVETVEGGGLIILLLKTISSLKQLYTMNM
DIHKRYRTESHQEIKCRFNERLILSLADCDRCLLVNDSLTVLPLSQITANVEPINVGEIV
KSQNDIQLEELKESLRDTPPAGPLINLCKTFDQAKAVAQFIDSLAEKQLKPPTSLTAARG
RGKSAAMGLAVAGAISFGYSQIYVTSPSPENLITFFEFIMKGFDVLAYQEHLDYTIIRST
NPDFNKAIVRINLTRNNRQTIQYISPNDSHLLNAADLLVIDEAAAIPLPLVKSMLGPYLV
F

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g2446.t4 Gene3D G3DSA:3.40.50.11040 - 15 193 4e-07
3 g2446.t4 PANTHER PTHR10925 N-ACETYLTRANSFERASE 10 1 361 0e+00
2 g2446.t4 Pfam PF08351 Domain of unknown function (DUF1726) 62 156 0e+00
1 g2446.t4 Pfam PF05127 Helicase 235 360 0e+00

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:0008080 N-acetyltransferase activity MF

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.

Raw TPM values