General information for g10571.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein.
Parent gene
- The parent gene g10571 is located on chr_1: 10488870..10489830 (- 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 | g10571 | g10571.t5 | isoform | g10571.t5 | 10487834 | 10489830 |
| chr_1 | g10571 | g10571.t5 | exon | g10571.t5.exon1 | 10487834 | 10488924 |
| chr_1 | g10571 | g10571.t5 | cds | g10571.t5.CDS1 | 10488870 | 10488924 |
| chr_1 | g10571 | g10571.t5 | exon | g10571.t5.exon2 | 10488980 | 10489210 |
| chr_1 | g10571 | g10571.t5 | cds | g10571.t5.CDS2 | 10488980 | 10489210 |
| chr_1 | g10571 | g10571.t5 | exon | g10571.t5.exon3 | 10489303 | 10489632 |
| chr_1 | g10571 | g10571.t5 | cds | g10571.t5.CDS3 | 10489303 | 10489373 |
| chr_1 | g10571 | g10571.t5 | exon | g10571.t5.exon4 | 10489745 | 10489830 |
| chr_1 | g10571 | g10571.t5 | TSS | g10571.t5 | NA | NA |
| chr_1 | g10571 | g10571.t5 | TTS | g10571.t5 | NA | NA |
Sequences
>g10571.t5 Gene=g10571 Length=1738
TACGTTTTTTCTCGATAGAGTTTTGTTTTGTAAATATTTTATTTGATGGTTTTCGGTGAA
TTGTGAGTGCAAAACGTGCCTAAAATTTTTCTCAAATAATAGAATTTTCATAATCATGGG
ACGATCTAGAAGCAGAAGCAGATCACTGTCACCAGTTCGGCGTAAGCGTGCTAAAGAACG
TGATAGATCAAAGAGGAAGCATAGAAATCGTTCAAAATCACGTGAAAAGAGACGACGCAG
TCGTTCACGCTCAGAAGAATATAGTAGAACTGGAGTAGGCAGCAGTACAGGAAGCTCATT
AATGAGACATAGACGATCTAGTAGATCTCGTTCTAGGTGAATAAAATGAAACACACACAC
CCCCCTATAATCAATCAATCTCCATTTCATCGAATTGTTTCAAGCATGTTAAGAGTATCA
AGATCTTATGAAAGAAGGCATCGTTCACGTTCACCATACGCTCCATCAACATCAAAATCC
AAAATTTCTTCAGTTAATGTTTCGGAAGCTGATTTAGTGGGCAAATCGCCTGATGAAATT
GAAATGATGAAAGTGATGGGATTCTGTGGCTTTGATACAACAAAGGGCAAAAAAGTTGAA
GGAAATAATGTAGGAGAAGTTCATGTTATTTTAAAAAGAAAATATAGACAATATATGAAT
CGCAAAGGCGGCTTTAATCGACCATTGGACTTTGTTGCATAAATTGTTAATGCCCACTGA
CATAATTATGATTTACACCTATCTTATAGCGTATCTAAGTTAATTCTTCAATAGCTTTTA
AGCAATTCATTCTTGAAACAACAGCCAGCAAATTTTCTTTTTTATTTTCTCACTTTTATG
ATGGTATATTTGAAAAATCATCATTTGGATTTGCAACATAATCAAAAATAACCCTCCACA
TTTTTTTCACACTCACCACCACATACAGTACAATAGTTAAAATTCTTCAGGTTAAACGGG
TTAATAATCACTTTCATTTCTTCTTCTACATAGATTTCTACTTAATTCTCACTTCTTTTT
AACATAATATTTTTAATGGGAAAAAATTGCTCATTGAGAAAAAATCTGGTATTAGAGTTG
AAAGGGAGTGATTTTAACAAAAAAATTTACAACATAATATACAATAGTCTTTTCATATAC
ACACAACTCAACTCAATCCACAAATACAAATATGCAATAGTCAGGGAATTATCAAACTTT
CGAATTGAGAATTTTAAATCTTAAAAGAGGTCACCAGTCATCAACATCATCATGCATTCC
TTAAAAAATGAAAGAAAAAAGATTCAATTAATTCAATTGAAAATATTGTAGTTTTGACAT
TTTTTAAATAAGAATAACAATTTGCATCAGATGATGAATTAGGAATAAAATTTTCGATAT
GAAAAGTTTGATAATATTATTACACACTTTATTTGTTAAACGATTTTTACCATATACAAA
CAATAGTTCTAAAATTTGCCAATTTTTGAATATACCTCATAACACCATACATTCATACTT
ATAAAAACGAAACAATTATCTATTGACATAAGCTCTTTTTCTATAAATTAAATAGTTTTA
AGATTATTTCAACCCTTATTTTCATACTACACATTTTCTTATTTTTAATTTATTATATTG
TATTCTCTATTTCTTTTCTTTTCTGTTCAAGTCATGTTTGAATCAAGAAATAAATGAATT
TTAATTGTGAAATCATTTAATTTATGATAATAAACAAATTTAAATTAACATTTGAACT
>g10571.t5 Gene=g10571 Length=118
MKHTHPPIINQSPFHRIVSSMLRVSRSYERRHRSRSPYAPSTSKSKISSVNVSEADLVGK
SPDEIEMMKVMGFCGFDTTKGKKVEGNNVGEVHVILKRKYRQYMNRKGGFNRPLDFVA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10571.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 25 | 53 | - |
| 4 | g10571.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 38 | 53 | - |
| 2 | g10571.t5 | PANTHER | PTHR31077 | U4/U6.U5 SMALL NUCLEAR RIBONUCLEOPROTEIN 27 KDA PROTEIN | 26 | 117 | 3.3E-30 |
| 3 | g10571.t5 | PANTHER | PTHR31077:SF1 | U4/U6.U5 SMALL NUCLEAR RIBONUCLEOPROTEIN 27 KDA PROTEIN | 26 | 117 | 3.3E-30 |
| 1 | g10571.t5 | Pfam | PF08648 | U4/U6.U5 small nuclear ribonucleoproteins | 63 | 116 | 4.7E-30 |
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:0008380 | RNA splicing | BP |
KEGG
Orthology
- This transcript has been annotated with K12846 (U4/U6.U5 tri-snRNP-associated protein 3)
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.
