Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t2 TSS g3473.t2 25773588 25773588
chr_3 g3473 g3473.t2 isoform g3473.t2 25773678 25774707
chr_3 g3473 g3473.t2 exon g3473.t2.exon1 25773678 25773711
chr_3 g3473 g3473.t2 cds g3473.t2.CDS1 25773678 25773711
chr_3 g3473 g3473.t2 exon g3473.t2.exon2 25773768 25773950
chr_3 g3473 g3473.t2 cds g3473.t2.CDS2 25773768 25773950
chr_3 g3473 g3473.t2 exon g3473.t2.exon3 25774009 25774707
chr_3 g3473 g3473.t2 cds g3473.t2.CDS3 25774009 25774178
chr_3 g3473 g3473.t2 TTS g3473.t2 25775455 25775455

Sequences

>g3473.t2 Gene=g3473 Length=916
ATGAAAAATAAAGACGAAGATATTAAAGAAGATGAAAAAGTTGATTTAAAAAGGAAACTT
GAAGTAAAAGAAGAAGAAGATGATGATGACGATGAACCAATGATTCCGAATAACAAAATG
GTTATTAAACAATGTCCATTTTTGGACACAATAAACCGTCATGTTCTGGACTTTGATTTT
GAGAAATTATGCTCAATTTCTTTAACGAGAATTAATGTTTATGCATGTTTGGTTTGCGGA
AAATATTTCCAAGGAAGAGGGAAGAGTACTCATGCATATACACATTCAGTGGCAGAATCA
CATCATGTTTTTCTCAATCTCTCAAATTTGAGATTTTACTGTTTACCAGATAATTATGAA
ATCATCGATTCATCTTTAGATGTATGAAAACTTTATCATTTATAGTCGATATTTAAACTT
CATTCTATTTTATTCTAGGATATAAAGTATGTTCTTAATCCAACTTTTACAAAAAATGAT
ATAAAAGTACTTGATGATTCAGAGAAGACTTCAAGAACTCTTGATGGAACTTTATATTTT
CCTGGGATAGTTGGTCTCAATAATATTAAAGCAAATGACTATTGTAATGTTGTTCTTCAA
GCACTCTCACATGTGACACCAATTAGAGACTATTTTCTATGTGAACAAAATTATTCAAAA
ATTAAGCATTCATCGGGCGATTCTGCTTTTGCAATTGTGCAACGCTTCGGTGAATTAATG
AGAAAATTGTGGAATCCAAGAAATTTTAAAGCTCATGTTTCTCCGCATGAAATGCTTCAA
GCTGTTGTTCTTTGGAGCAATAAAAGATTTCAAATTATTGAACAGAGCGATCCAATTGAT
TTTCTTACATGGTTTTTGCATGAATTACATCGTCAATTGAGAGGAAATAAAAATCTTAAC
TCAAGCATTATCAATA

>g3473.t2 Gene=g3473 Length=128
MKNKDEDIKEDEKVDLKRKLEVKEEEDDDDDEPMIPNNKMVIKQCPFLDTINRHVLDFDF
EKLCSISLTRINVYACLVCGKYFQGRGKSTHAYTHSVAESHHVFLNLSNLRFYCLPDNYE
IIDSSLDV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g3473.t2 Coils Coil Coil 6 26 -
6 g3473.t2 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 45 128 1.5E-38
2 g3473.t2 PANTHER PTHR21646 UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 18 127 7.2E-23
3 g3473.t2 PANTHER PTHR21646:SF71 BNAA06G13940D PROTEIN 18 127 7.2E-23
1 g3473.t2 Pfam PF02148 Zn-finger in ubiquitin-hydrolases and other protein 67 125 6.0E-14
8 g3473.t2 ProSiteProfiles PS50271 Zinc finger UBP-type profile. 62 123 17.651
5 g3473.t2 SMART SM00290 Zf_UBP_1 63 112 2.1E-12
4 g3473.t2 SUPERFAMILY SSF57850 RING/U-box 45 126 6.47E-22

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:0008270 zinc ion binding 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