Gene loci information

Transcript annotation

  • This transcript has been annotated as U4/U6.U5 tri-snRNP-associated protein 2.

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 g3473 g3473.t3 TSS g3473.t3 25773588 25773588
chr_3 g3473 g3473.t3 isoform g3473.t3 25773678 25774707
chr_3 g3473 g3473.t3 exon g3473.t3.exon1 25773678 25773711
chr_3 g3473 g3473.t3 cds g3473.t3.CDS1 25773678 25773711
chr_3 g3473 g3473.t3 exon g3473.t3.exon2 25773768 25773950
chr_3 g3473 g3473.t3 cds g3473.t3.CDS2 25773768 25773950
chr_3 g3473 g3473.t3 exon g3473.t3.exon3 25774009 25774172
chr_3 g3473 g3473.t3 cds g3473.t3.CDS3 25774009 25774172
chr_3 g3473 g3473.t3 exon g3473.t3.exon4 25774230 25774707
chr_3 g3473 g3473.t3 cds g3473.t3.CDS4 25774230 25774706
chr_3 g3473 g3473.t3 TTS g3473.t3 25775455 25775455

Sequences

>g3473.t3 Gene=g3473 Length=859
ATGAAAAATAAAGACGAAGATATTAAAGAAGATGAAAAAGTTGATTTAAAAAGGAAACTT
GAAGTAAAAGAAGAAGAAGATGATGATGACGATGAACCAATGATTCCGAATAACAAAATG
GTTATTAAACAATGTCCATTTTTGGACACAATAAACCGTCATGTTCTGGACTTTGATTTT
GAGAAATTATGCTCAATTTCTTTAACGAGAATTAATGTTTATGCATGTTTGGTTTGCGGA
AAATATTTCCAAGGAAGAGGGAAGAGTACTCATGCATATACACATTCAGTGGCAGAATCA
CATCATGTTTTTCTCAATCTCTCAAATTTGAGATTTTACTGTTTACCAGATAATTATGAA
ATCATCGATTCATCTTTAGATGATATAAAGTATGTTCTTAATCCAACTTTTACAAAAAAT
GATATAAAAGTACTTGATGATTCAGAGAAGACTTCAAGAACTCTTGATGGAACTTTATAT
TTTCCTGGGATAGTTGGTCTCAATAATATTAAAGCAAATGACTATTGTAATGTTGTTCTT
CAAGCACTCTCACATGTGACACCAATTAGAGACTATTTTCTATGTGAACAAAATTATTCA
AAAATTAAGCATTCATCGGGCGATTCTGCTTTTGCAATTGTGCAACGCTTCGGTGAATTA
ATGAGAAAATTGTGGAATCCAAGAAATTTTAAAGCTCATGTTTCTCCGCATGAAATGCTT
CAAGCTGTTGTTCTTTGGAGCAATAAAAGATTTCAAATTATTGAACAGAGCGATCCAATT
GATTTTCTTACATGGTTTTTGCATGAATTACATCGTCAATTGAGAGGAAATAAAAATCTT
AACTCAAGCATTATCAATA

>g3473.t3 Gene=g3473 Length=286
MKNKDEDIKEDEKVDLKRKLEVKEEEDDDDDEPMIPNNKMVIKQCPFLDTINRHVLDFDF
EKLCSISLTRINVYACLVCGKYFQGRGKSTHAYTHSVAESHHVFLNLSNLRFYCLPDNYE
IIDSSLDDIKYVLNPTFTKNDIKVLDDSEKTSRTLDGTLYFPGIVGLNNIKANDYCNVVL
QALSHVTPIRDYFLCEQNYSKIKHSSGDSAFAIVQRFGELMRKLWNPRNFKAHVSPHEML
QAVVLWSNKRFQIIEQSDPIDFLTWFLHELHRQLRGNKNLNSSIIN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g3473.t3 Coils Coil Coil 6 26 -
9 g3473.t3 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 45 133 6.7E-40
8 g3473.t3 Gene3D G3DSA:3.90.70.10 Cysteine proteinases 134 286 2.1E-36
3 g3473.t3 PANTHER PTHR21646 UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 18 285 1.2E-67
4 g3473.t3 PANTHER PTHR21646:SF71 BNAA06G13940D PROTEIN 18 285 1.2E-67
1 g3473.t3 Pfam PF02148 Zn-finger in ubiquitin-hydrolases and other protein 67 125 3.1E-13
2 g3473.t3 Pfam PF00443 Ubiquitin carboxyl-terminal hydrolase 165 276 2.1E-15
11 g3473.t3 ProSiteProfiles PS50271 Zinc finger UBP-type profile. 62 123 17.651
12 g3473.t3 ProSiteProfiles PS50235 Ubiquitin specific protease (USP) domain profile. 165 286 16.929
7 g3473.t3 SMART SM00290 Zf_UBP_1 63 112 2.1E-12
5 g3473.t3 SUPERFAMILY SSF57850 RING/U-box 43 138 2.12E-23
6 g3473.t3 SUPERFAMILY SSF54001 Cysteine proteinases 156 280 7.26E-23

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:0004843 thiol-dependent deubiquitinase MF
GO:0016579 protein deubiquitination BP
GO:0008270 zinc ion binding MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following 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. There were no conditions that were differentially expressed