BtaINT0118352 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30386035-30387042:-
Coord C1 exon
chr5:30387025-30387042
Coord A exon
chr5:30386179-30387024
Coord C2 exon
chr5:30386035-30386178
Length
846 bp
Sequences
Splice sites
5' ss Seq
TTCGTAAGT
5' ss Score
9.77
3' ss Seq
CTTCCTTTCCTCGTTTGCAGATG
3' ss Score
13.43
Exon sequences
Seq C1 exon
ATGATGCCACCACCCTTC
Seq A exon
GTAAGTTTTATGTCTTTCCCTGGGCTTGGCTTTTCCAGCCTGCATCCCCAACTTCCTAGCCCCCAGCACTGCTGCATCGCCAGCACAGTTTTTGTGTAATGCCCCCTTCCTGTTGCCCTTGGTTGAGGGATGGTTTTGCTTGGGTCCATAACGTTGACAGTTCTCCCTTTGTCTTTTTGTCCTTGGGACACACGGGGGCTGGGGGAAGAAGTGAATGGGAAAAGACCCTCTTAAGTGTGAGGGCAGGGTGGGGCTCTCTTTCTCTTTCACTGCTCCTTGTCTGTATTCTTTTTTGTTCCTCCCCCAACATGGCTTGTGGGATCTCAGTTCCCCAACCAGGGACTGAACCCACGCCCTTGGCAGTGAAAGCTTGGAGTCCTAACCACTGGACTGCCAGGAAACTCCCCTTGTCTATATTTTTTAAATACGCCATGAAGTCAGGCTGGAATAGCAACTGGTGGTCATCAGTTGGGAAAAAAGGGATAGGAGGCAGAGGACTGGGAGATTGGGGACTGGACACCTGCCTCTGGCCCTGCATCTGAAAGGCCTCTCTGGAGAGAGTTGCTTAAGTGGTGGAGCCTTCCAATCGCAGTCTGGTGGCAGTTCCATTTCTCTTTCCCCTCTCCCCTGCCTCTCAAGAAGCCGTTTGCTTGCCTCTTAGACCCAGAGGACCCCTGTTGTCAGTCTCAGTGGTGAGGAGGGAGGCAGTTTGATGCCTTTCAAACTGAAACTTTGGACTGTCTCAGAGCCAGTGTGAAGGGTTGGGTGGGAGATGAGTGGCTGTTTCCTGACAGGGGCAGAGCAGTGTCTCCTCTGCTCAGGCTCTCTTCCTTTCCTCGTTTGCAG
Seq C2 exon
ATGCCTCCTCCAGGAATCCCCCCACCTTTTCCTCCAATGGGGCTCCCTCCCATGAGTCAGAGACCACCAGCCATCCCCCCCATGCCACCTGGCATCATGCCCCCAATGCTCCCACCGATGGGGGCACCACCACCACTCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589:ENSBTAT00000022067:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
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]