General information for g14085.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as U4/U6 small nuclear ribonucleoprotein Prp31.
Parent gene
- The parent gene g14085 is located on chr_1: 34521982..34523446 (- 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_1 | g14085 | g14085.t4 | TTS | g14085.t4 | 34521747 | 34521747 |
| chr_1 | g14085 | g14085.t4 | isoform | g14085.t4 | 34521982 | 34523282 |
| chr_1 | g14085 | g14085.t4 | exon | g14085.t4.exon1 | 34521982 | 34523282 |
| chr_1 | g14085 | g14085.t4 | cds | g14085.t4.CDS1 | 34521982 | 34523253 |
| chr_1 | g14085 | g14085.t4 | TSS | g14085.t4 | 34523489 | 34523489 |
Sequences
>g14085.t4 Gene=g14085 Length=1301
AAAAAGATGAAGAGCCGGAAGATGAGAAAATGGAAGTAGAAGATGAACCAGAAGTGAACG
TGAAAGTTGAATCTGTTAGAGAATTATGCAAACTGCGAGATTCAGAACAGCTTAAAAAGA
TACTTGAGGATATTTCACATTATGTTAATAAACCGAGAAAAGCTTCAGAAATGATTGGAA
ATTTAGAGAGTGATCCAGAATATCAGCTTATCGTATCAGCAAATAATATTGCAGTTGAAA
TCGATAATGAAATTTCTCTAATTAATAAGTTTGTCAAAGATAAATATCAAAAAAGATTTC
CTGAACTGGATTCTCTTATTCATACAGAAATGGATTACATTTGTGCCGTGAAAGAACTTG
GCAATGACCTTGATCAGGCAAAAAATAATGAATCACTTCAAAAAATTCTCACTCAGGCAA
CAATTATGATTGTATCAGTGACTGCATCAACAACTCAAGGTCAATTGTTAACAGAAAAGG
AATTGGAGAAAATTAATGAAGCATGTGACATGGCAATTGAACTCAACAACTTTAAGCTCA
CTATTTACGATTATGTCGAGAGTAAAATGACGTTTATCGCACCTAACTTGAGTGCTATCG
TTGGAGCAAAAACTGCAGCAAAATTACTTGGTCTTGCTGGTGGTTTGACAAAACTTTCAA
AAATGCCTGCATGTAATATTCTCGTTCTTGGCGCTCAAAAAAAGACACTCTCAGGATTCT
CAAAAGTAGCTATGCTTCCTCATACTGGTTTTGTCTATTATTCAGAGCTTGTTCAAGACA
CAATTCCTGATTTAAGAAGAAAAGCGGCGAGACTTGTTGCGAATAAAGCTGCTTTAGCTG
CTCGCGTTGATGCATCGCATGAAGCAGTACATGGTGAAATTGGAACAGCATTTCGTGAAG
ACATTGAAAAGAAATTAGACAAACTGCAAGAACCACCACCAGTGAAATTTGCTAAACCAT
TGCCCAAACCACTTGAAGGTGGCAAAAAGAAACGAGGTGGAAAACGTGTAAGAAAACAGA
AGGAACGTTATGCGATAACTGAATATAGAAAGCAAGCGAATCGTTTGAACTTTGCTGAAA
TTGAGGATGACGCTTATCAAGATGATTTGGGTTATTCGCGTGGAACTATTGGCAAGAAAA
ATACTAGCGGTATTCGTATGCCTCAAATTGATGAAAAGACTAAAGTAAGAATTAGCAAAA
CACTGCAAAAAAATTTACAGCGTCAAAACAACGTTATTGGCACGACTACGACAATTAAAA
AGCATGTGTCAGGTACTGCTTCGAGTGTCGCTTTTACACCA
>g14085.t4 Gene=g14085 Length=424
MEVEDEPEVNVKVESVRELCKLRDSEQLKKILEDISHYVNKPRKASEMIGNLESDPEYQL
IVSANNIAVEIDNEISLINKFVKDKYQKRFPELDSLIHTEMDYICAVKELGNDLDQAKNN
ESLQKILTQATIMIVSVTASTTQGQLLTEKELEKINEACDMAIELNNFKLTIYDYVESKM
TFIAPNLSAIVGAKTAAKLLGLAGGLTKLSKMPACNILVLGAQKKTLSGFSKVAMLPHTG
FVYYSELVQDTIPDLRRKAARLVANKAALAARVDASHEAVHGEIGTAFREDIEKKLDKLQ
EPPPVKFAKPLPKPLEGGKKKRGGKRVRKQKERYAITEYRKQANRLNFAEIEDDAYQDDL
GYSRGTIGKKNTSGIRMPQIDEKTKVRISKTLQKNLQRQNNVIGTTTTIKKHVSGTASSV
AFTP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g14085.t4 | Gene3D | G3DSA:1.10.287.660 | Helix hairpin bin | 61 | 174 | 0.000 |
| 8 | g14085.t4 | Gene3D | G3DSA:1.10.150.460 | - | 91 | 143 | 0.000 |
| 7 | g14085.t4 | Gene3D | G3DSA:1.10.246.90 | - | 175 | 302 | 0.000 |
| 3 | g14085.t4 | PANTHER | PTHR13904 | PRE-MRNA SPLICING FACTOR PRP31 | 9 | 424 | 0.000 |
| 4 | g14085.t4 | PANTHER | PTHR13904:SF0 | U4/U6 SMALL NUCLEAR RIBONUCLEOPROTEIN PRP31 | 9 | 424 | 0.000 |
| 2 | g14085.t4 | Pfam | PF01798 | snoRNA binding domain, fibrillarin | 69 | 298 | 0.000 |
| 1 | g14085.t4 | Pfam | PF09785 | Prp31 C terminal domain | 306 | 424 | 0.000 |
| 10 | g14085.t4 | ProSiteProfiles | PS51358 | Nop domain profile. | 183 | 301 | 39.816 |
| 6 | g14085.t4 | SMART | SM00931 | NOSIC_2 | 60 | 112 | 0.000 |
| 5 | g14085.t4 | SUPERFAMILY | SSF89124 | Nop domain | 54 | 301 | 0.000 |
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:0000244 | spliceosomal tri-snRNP complex assembly | BP |
| GO:0000398 | mRNA splicing, via spliceosome | BP |
| GO:0046540 | U4/U6 x U5 tri-snRNP complex | CC |
KEGG
Orthology
- This transcript has been annotated with K12844 (U4/U6 small nuclear ribonucleoprotein PRP31)
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.
