General information for g14085.t3
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.t3 | TTS | g14085.t3 | 34521747 | 34521747 |
| chr_1 | g14085 | g14085.t3 | isoform | g14085.t3 | 34521804 | 34523446 |
| chr_1 | g14085 | g14085.t3 | exon | g14085.t3.exon1 | 34521804 | 34523282 |
| chr_1 | g14085 | g14085.t3 | cds | g14085.t3.CDS1 | 34521946 | 34523282 |
| chr_1 | g14085 | g14085.t3 | exon | g14085.t3.exon2 | 34523347 | 34523446 |
| chr_1 | g14085 | g14085.t3 | cds | g14085.t3.CDS2 | 34523347 | 34523446 |
| chr_1 | g14085 | g14085.t3 | TSS | g14085.t3 | 34523489 | 34523489 |
Sequences
>g14085.t3 Gene=g14085 Length=1579
ATGTCTCTAGCCGATGAACTCTTAGCTGATTTAGAGGACGATAATGAAGATGAGGAATTG
GAACAACTCGTTAAAGAAAAAACTGAAAGTGATAATGAAGAAAAAGATGAAGAGCCGGAA
GATGAGAAAATGGAAGTAGAAGATGAACCAGAAGTGAACGTGAAAGTTGAATCTGTTAGA
GAATTATGCAAACTGCGAGATTCAGAACAGCTTAAAAAGATACTTGAGGATATTTCACAT
TATGTTAATAAACCGAGAAAAGCTTCAGAAATGATTGGAAATTTAGAGAGTGATCCAGAA
TATCAGCTTATCGTATCAGCAAATAATATTGCAGTTGAAATCGATAATGAAATTTCTCTA
ATTAATAAGTTTGTCAAAGATAAATATCAAAAAAGATTTCCTGAACTGGATTCTCTTATT
CATACAGAAATGGATTACATTTGTGCCGTGAAAGAACTTGGCAATGACCTTGATCAGGCA
AAAAATAATGAATCACTTCAAAAAATTCTCACTCAGGCAACAATTATGATTGTATCAGTG
ACTGCATCAACAACTCAAGGTCAATTGTTAACAGAAAAGGAATTGGAGAAAATTAATGAA
GCATGTGACATGGCAATTGAACTCAACAACTTTAAGCTCACTATTTACGATTATGTCGAG
AGTAAAATGACGTTTATCGCACCTAACTTGAGTGCTATCGTTGGAGCAAAAACTGCAGCA
AAATTACTTGGTCTTGCTGGTGGTTTGACAAAACTTTCAAAAATGCCTGCATGTAATATT
CTCGTTCTTGGCGCTCAAAAAAAGACACTCTCAGGATTCTCAAAAGTAGCTATGCTTCCT
CATACTGGTTTTGTCTATTATTCAGAGCTTGTTCAAGACACAATTCCTGATTTAAGAAGA
AAAGCGGCGAGACTTGTTGCGAATAAAGCTGCTTTAGCTGCTCGCGTTGATGCATCGCAT
GAAGCAGTACATGGTGAAATTGGAACAGCATTTCGTGAAGACATTGAAAAGAAATTAGAC
AAACTGCAAGAACCACCACCAGTGAAATTTGCTAAACCATTGCCCAAACCACTTGAAGGT
GGCAAAAAGAAACGAGGTGGAAAACGTGTAAGAAAACAGAAGGAACGTTATGCGATAACT
GAATATAGAAAGCAAGCGAATCGTTTGAACTTTGCTGAAATTGAGGATGACGCTTATCAA
GATGATTTGGGTTATTCGCGTGGAACTATTGGCAAGAAAAATACTAGCGGTATTCGTATG
CCTCAAATTGATGAAAAGACTAAAGTAAGAATTAGCAAAACACTGCAAAAAAATTTACAG
CGTCAAAACAACGTTATTGGCACGACTACGACAATTAAAAAGCATGTGTCAGGTACTGCT
TCGAGTGTCGCTTTTACACCACTTCAAGGTAAATTGATAATTTTTCTATATGTATGATAA
ATTTTTGATAATTTTCTTATTATAATTAGGTTTGGAAATTAATAATCCAAGTGCAGCAGA
ACAGACGCTAAGTGAATCAAATTTGAAATATTTCTCAAACACCTCCGGATTCATGTCTGT
TGGTAAAAAATTTGTTTAA
>g14085.t3 Gene=g14085 Length=478
MSLADELLADLEDDNEDEELEQLVKEKTESDNEEKDEEPEDEKMEVEDEPEVNVKVESVR
ELCKLRDSEQLKKILEDISHYVNKPRKASEMIGNLESDPEYQLIVSANNIAVEIDNEISL
INKFVKDKYQKRFPELDSLIHTEMDYICAVKELGNDLDQAKNNESLQKILTQATIMIVSV
TASTTQGQLLTEKELEKINEACDMAIELNNFKLTIYDYVESKMTFIAPNLSAIVGAKTAA
KLLGLAGGLTKLSKMPACNILVLGAQKKTLSGFSKVAMLPHTGFVYYSELVQDTIPDLRR
KAARLVANKAALAARVDASHEAVHGEIGTAFREDIEKKLDKLQEPPPVKFAKPLPKPLEG
GKKKRGGKRVRKQKERYAITEYRKQANRLNFAEIEDDAYQDDLGYSRGTIGKKNTSGIRM
PQIDEKTKVRISKTLQKNLQRQNNVIGTTTTIKKHVSGTASSVAFTPLQGKLIIFLYV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g14085.t3 | Coils | Coil | Coil | 1 | 21 | - |
| 8 | g14085.t3 | Gene3D | G3DSA:1.10.287.660 | Helix hairpin bin | 104 | 217 | 3.8E-11 |
| 7 | g14085.t3 | Gene3D | G3DSA:1.10.150.460 | - | 134 | 186 | 3.8E-11 |
| 6 | g14085.t3 | Gene3D | G3DSA:1.10.246.90 | - | 218 | 345 | 1.5E-42 |
| 11 | g14085.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 50 | - |
| 12 | g14085.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 33 | 47 | - |
| 3 | g14085.t3 | PANTHER | PTHR13904 | PRE-MRNA SPLICING FACTOR PRP31 | 1 | 471 | 7.8E-166 |
| 4 | g14085.t3 | PANTHER | PTHR13904:SF0 | U4/U6 SMALL NUCLEAR RIBONUCLEOPROTEIN PRP31 | 1 | 471 | 7.8E-166 |
| 2 | g14085.t3 | Pfam | PF01798 | snoRNA binding domain, fibrillarin | 112 | 341 | 2.7E-78 |
| 1 | g14085.t3 | Pfam | PF09785 | Prp31 C terminal domain | 349 | 471 | 4.7E-37 |
| 13 | g14085.t3 | ProSiteProfiles | PS51358 | Nop domain profile. | 226 | 344 | 39.816 |
| 10 | g14085.t3 | SMART | SM00931 | NOSIC_2 | 103 | 155 | 3.2E-17 |
| 5 | g14085.t3 | SUPERFAMILY | SSF89124 | Nop domain | 97 | 344 | 4.97E-83 |
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.
