BtaINT0118333 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048151 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr2:43622803-43624758:+
Coord C1 exon
chr2:43622803-43622923
Coord A exon
chr2:43622924-43624733
Coord C2 exon
chr2:43624734-43624758
Length
1810 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TCTTTTTTTCTCTTTAATAGCAA
3' ss Score
9.28
Exon sequences
Seq C1 exon
CAACTTTTATCTAAATGCCCTTGGAAGGAGTACAAGTCTGACTCTGGAAAGCCTTATTATTACAATTCTCAAACAAAAGAATCTCGCTGGGCCAAACCTAAAGAACTTGAAGATCTTGAAG
Seq A exon
GTAAAACAGGGAAAAATAATTTTTAATGTTCCTTTTTATATGTGTGTGTTATTCACAGTCCTTCATAAATAGGATTGTTCAATCAGAGGTCTTATTTTTTAAAATTAAGTGATTAGAACGTTTTAAATGGTGTAACAGTTTTATGGGCTCTTATTTTCTTGTTGCTCTAGATCTCAGTTCTATAGATTTTAAATAGATTTTTATTTGATTTGATTCCACTGAAACTAGGATACCAGAATACCATTGTTGCTGGAAGTCTTATTACAAAATCAAACCTGCATGGTGAGCTGCTTTGATAATTCATTTTCTGTCATTATTTAACATTTTTAGAGTATGTCACTAATGTTCACTAACCGTAATTGGATAAATCTGCAGTGAGAAATTTCTAATTCAAAAAATTCCTTTCATTTAAGGGTTATATTATAAATGAGCTTGTAGTTTTTAACATTGTACTTGGACACAAAGTGTCATTCGATAATTGAACAAAGACATCATATACAATATTTCTAAAGACAGCTGAGAGTGTTGGTGCATACATGGAATATGTGACTTAACTCATTTAGCAGATAGAGAACCTTTGTTAACATATTGTCAGACTCTGCATTTAATGCTGATTTTATTTTAGCACAACATTGCAAAATAGCCTTTATGTTTATTATGGAAGAATTAAATTAAAATGCCACACCTCACAGAAGGAGAATATTCTAGCATCCTCAACTATTCAGAACATTCCTGCAAATCTATGAATATTACCTAATATTAAAACCTAGGACTTAAAATAGATTATGGGTAGGAATTGAGAATTTATTTTTTACTCTGACTTCTAATACAATCTGGTGTCATAATCTATATCCGGTTAGAAAAAACAAATTGTAGGAGAATGGGACTGTTTGAAACATAAGATGACATCTGACAGGAAAGAGAATAAGCATTTCTTAAAGGCACTGTGATCTTTGTCTATTTAACTTTTCCCTGTGTCACCTCATTCGCTTGGATGATCATTTTATCTGAAGAATTTAATTAGTAGTGATAACACCTTTAGTGTGTTTTGTCAGCCATTCTAAACACATTTCCTTTAAAGGGGGACAAGTTTCAAAAACTTTCATGGAGTTAAGCTTATATTATCATTTACATGGAGCACCTCATTCCCTAATACTGTGAATAAATGAGATATCTGTGTTACCTGTAAAGAAAAATTTACTTTAACTAGATTGAAATCTGAAATACTGAGTGAAGATCTTTAAAGCTCAATTTATACTTCTGTACTAGCATTGGCTAATAATACTATTGTAGATAGGTAGATTCCCACTTCATTCATGTAAGGAATGTCAAGCTCATTTCTGATATAACCCTACTACAAATAGTTGGTGTGCATAACTATCTATCTACCTGTCAATGCTAGTATATATGTGCTGGAATTTCATAACATACATTCAATCCCATTTTGAATTTAGTATCTTAAAGAAAAGCAAATGGTTTTATCCCTGAGGAAAATGTTATTTTATTCCAGAATTACGCAGATACTTTGAGGGTGTTTTTGCAGTAGCCAGCAGCCTTTGAGAAGGTAGCATTGTGGGAAGAAGCTCTCCTAAAACCTGCTGTTATTTAAAATTTGTTTTTATTCTTTAATTTCTGTCCTGGAATTTATAGAGCACTCGCACTGTAAATGTAGTGTTGTGTTTTTTTTTTTTAAGGCTGGTAAATTAAATCTTACTGTATGGAACTTTTAATCTCCTTTTAAAGTTGTTTTCAGTGATTGTATTTGAAAACTATGTAGTGTTTATAACTTTTCTTTTTTTCTCTTTAATAG
Seq C2 exon
CAATGATCAAAGCTGAAGAAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048151:ENSBTAT00000064349:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.476 A=NA C2=0.833
Domain overlap (PFAM):
C1:
PF0039721=WW=WD(100=73.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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]