BtaINT0118342 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048151 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr2:43632665-43636541:+
Coord C1 exon
chr2:43632665-43632798
Coord A exon
chr2:43632799-43636426
Coord C2 exon
chr2:43636427-43636541
Length
3628 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
TTGTTGTCCCTTTCCCCCAGATA
3' ss Score
11.75
Exon sequences
Seq C1 exon
ATATGGATAAAGAAGATGCATTAATTTGCTTTGAGGAACACATTCGAGCTTTAGAAAAGGAAGAGGAAGAAGAAAAACAAAAGAGTTTGCTTCGTGAAAGGAGACGACAGCGTAAAAATAGAGAATCTTTTCAG
Seq A exon
GTAATTTTAAAAGTTCTGTTTTTCAGCTTAATTTTGTAATATGGTTAATGACCTTTAAGAGTGATATAAGCAATTTTGAGAATCCCGGTCTCAGATCATTAACTTGGGCTTTGCAGAGGATCCATAGACATTAATTCTTAAATTATACAGTTAGTTGTGAATCCACTTAAGGAGAGTAGCCATTCCAGGCAAGAGAAACACAGAAGGCTATAGCAGATTTGGTATTTAAAGTGAACACTGATAGGTATGGTTTCACTCAGGAAAGAGGAATCAATAGCATAAGGGAGGACTGAAAATAAAATGTGTGATGAGTCATTAGTACTTATTCATTTTTAGTTCTTTAAAGAACTGTAGGAAATGCTGTGGTATGCTTTTGAGGATGGAGAATCCCAGGGACGGGGGAACCTGGTGGGCTGCCGTCTGTGGGGACACGACTGAAGTGACTTAGCAGTAGCAGCATAATTCTTAAACACTATACAGAGGAGCTAAAATTACAGGTTCTCTGTATAGCCTTATTTTGCATCTATGTCATGTTTTAATTACTGGATCTCTTTCATTAAATCCTGTATTAGGATAAGTGCAACTCCTCATGGTGCCTAAGATCACCAGTCACCTTAAATGCCACAGCCAATAGCATTATTGCAGTCTTCATTGCATAAGAATGTAACGTTTACTTCTCTTGATGGTTTTCTTTTATCTTAGTAGTTTCCCAAAGGATCATTTGGAGTATTGTTAAAACCAGGGGTTGTTGAGCCTCACCCTCAGAAATTGATTCAGTAGATCTCTTTCAAGTTGTACATAGACCTTTTAAAGGAAGTAGAGCAGCAGAGGAAGATTACTGAGCTGAATGTCTGTCGCAGAACCAATAGAACATGCTTTTGCCTGCGTGTGTGCTTGTTGTGTTCAGTCACCAAGTCATGTCCCCCCAAGGACTGTAGCCTGCCAGGCTTCTCTGTCCAATTATATTAGTAGTAATCAGAAACCATGCCAGACACATACTAACGTGATACAAAGCTATATTTTAAGCTTAAGAATCAGATTAAATATTTTAGGCTGAAGCCCAGATTAAAGGTAGGGGCAAAATTAGACTGATGTTTTGATTAGATAGTTCAGGGTTAAAGACTAGCTTTTCTTTGGTAAGAGAGACCAGTCAAGATGGAAGGAATGAAGAAAGAATTAAAAGATGGAAGTATTCTGTTACTAAGTAAAATCTTTGAAGGTTTATTCAAGTATATATGAGTAGTTATATCATGGACAATATATAAGGAGACCAAAAACAAGGAAGGAGATGAGGGAAAAGAGATTATTGAGTTGGACTGAGGTAGTGAGTGGTGTTGAACTAGTCATTTTGTTGATGGTCATGATCTGGGGAGAAGTTACGACTAGCATCTAATTGGATAGAGGCCAGAGGTATTGATAAACGTTTCCCAATGTACAGGATTCCCATCCTGCATTGTGCCCCCGAAAAGTTTATGAGCTCCAAGAAGTCATTAGTGCCAGCGTTGGGAGCTGCCTTCTCTAAACATAAGGCCTAATGTGTTCTGGAGGATTTATTTTTTTATTTAATTTTCTAAGAGGAAGATACATAATTTTACTAAAGCAATACAGTCAGAGTTTGGAGAACTAGGACTTAACCCCCATGTCTGATTTTAAAACCTATTCTTTTTTTCCATATTACTATTATAACTTAAACATAAATTTTTATAGGCACACTTTATTATTATTTTTACTATTTGCCTACTTTCAGGGAAACATATTGACTTCAATACTCTGCAATTTTCAGATGTCCTTCTTCCTGAAAACCAGCCTCAGCCATCTTTGAAGCAGCTTGCTTTTCATCTTGTCCCCATCCTTCCCAAGATGGGGTTAGTAAATACTGGGTCAGCCACAAAGTTTGTTTGGGTTTTTCATAGTATCTTAGGAGAGACCTGAAGAAACTTTTTGGCCAACCCAATAAAAGAGAGTAAAAGCCATACAGTTTTAGCATAATGGTTTTCAAACCTGAATTCATATCAAAGTTATCTGGTGATCTTTAAAAAGTAAATTATAAGTATCTTTATTTTAATTCATATTTTAAAAGGAACCTCAAGTGATTTCTAATTATCACTCAAGTTAGATTGGCTGTTGAAACAGTGGTGGTGGTAGTAGTTTAGTTTCTAAGTCATGTCTGACTTTCAACCCTGTGGACTGTAGCCCACCAGGCTTCTCTATCCATCATACTTCCCAGGCAAGAACACTGGGATGAGTTGCCATTTCCTACTCTATCATTACTGGAGTAGATTCAGTGTCAGAATGCTATTACTTATCAGATCTTCGCAGCCAAGAAGTAAAACAGAAATACTAGCAAAGCAGATATGATAGAGTAGATTCTTTAGATACTAGAGAGCATCTTTGAAGATGGTTTCCAAGCTATTTTAAGGATTCCACAGAGGGAGAAGTGTGATCACTAAGTGATCACATAGCAGGGGTGTTGTTAAGCTCTCATTTATGTTGAAGGGTAAGGATGAAAGGATAGAAATTTTAAGTTTGAGAAAGAATTTTGGATATAGAGACTGAATCGACATGCTTATTCCCATTTGGAGAGAAGTGGGGCTATATGTCTGGTATCATTCACGGCAGTGCTATTCAATAAAAATTTGTATGCCACATACATGATTGTAATTTCTTATTAATTTAACTAATACTAATTTTAGTTACCTCTTATTTCACCCAGTATACCTAAAATATTTTCATTTTAACATGCAACCAATATATATTTTGGTAATAAACCTTCAGAATCATTGTGTGTTGTATACTGCTGGCACATCTCAGTTCAGAGTCATATTTCATGATACTTAGCAGCTGCATTTGACCAGCGACTGTGGTATTGAACAGTGCAGGTATAGGAATTTTAGGAACAAAATTTGTACCATAGTTTAGGGACATTTATAGCATTAAATAAACTCTATAAGGATTTCAGGAAGCAGAAAATGTGAAAATTGCAGACTATTGAAGTCAATATGTTGCCCTGAAAGTAAGCAAATAGTAAAAATAATAATAATAAAGTGAGGCTATAAAAATTTGTTTGTTATAACAGTAATAGAAAAAAAGAAATAGGTTTTAAAATCAGACATGGAGGTTAAGTTCTAGTTCCCTAAACTCTATGTATTGCTTTAGTAAAATTATATATCTTCCTCTTAGAAAAGAAAATTAAATAAAAAATAAATCTTCCAGAACACATTAGGTGTTATGTTTAAAAACAAAAAGTACATTTTACAGTAAAAGTGCATGTACCTTCTTTAGCCTCATTATTTGTAATAATAAACAGTGCTTTGAATTTACTTGTATACATATTTATAAACTAGAAATGATGATCTGTCTTAAAGGGGCACATAAACTGAAGTCTGTAAAAGTAATGCACACCTTTTGTCTGAAGTCCAAAATAGTTTATGTAAAAGCAGATTTTACTTTCATCAAAGAGCAAGTATCAGTTGCACTTAAACACATTTGTGATAACACTGGTGGAAGAGTTTTATATATTGCTGTTTTTAACATATATTTTTATTCATGTTATACCAACATTTCCAAAGTCCTTAAATATGGCTTTTGAATATGTAATGAGTTTGTTGTTGTTGTCCCTTTCCCCCAG
Seq C2 exon
ATATTTTTAGATGAACTGCATGAACATGGACAACTGCATTCTATGTCATCTTGGATGGAATTGTATCCAACAATTAGTTCTGACATTAGATTCACTAATATGCTTGGTCAGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048151:ENSBTAT00000064349:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.222 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0184614=FF=PD(23.2=28.9),PF0184614=FF=PU(10.7=13.3)
A:
NA
C2:
PF0184614=FF=FE(67.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]