BtaINT0118839 @ bosTau6
Intron Retention
Gene
ENSBTAG00000046105 | PRTN3
Description
proteinase 3 [Source:HGNC Symbol;Acc:HGNC:9495]
Coordinates
chr7:44981793-44982548:+
Coord C1 exon
chr7:44981793-44981992
Coord A exon
chr7:44981993-44982406
Coord C2 exon
chr7:44982407-44982548
Length
414 bp
Sequences
Splice sites
5' ss Seq
CTTGTGAGT
5' ss Score
7.15
3' ss Seq
ACGAACGCCCCGACCGTCAGGAA
3' ss Score
2.82
Exon sequences
Seq C1 exon
CGTCAGAAGAGGCGACTGCCCCTGACCCCCGCGTCCCCAGGAGCAGCCCGGGCCGTGGAGATCGTGGGCGGGAGGGAAGCCCAGCCCCACTCGCGCCCCTACGTGGCGTCGCTGCAGCTGGCTTCCGGCAGCCACTTCTGCGGCGGGACCCTGGTGCACCCGAGCTTCGTGCTGACCGCCGCTCACTGCCTGAACAACTT
Seq A exon
GTGAGTGCGCCGGCGCGTGATGGGCCGGGGTCTGAGGGGGAGGACGGACCTGCTGTAGGGTCCGGGGTCCGGGTTCCGGGGGGCGGAGGGCGGGCCTGCCCGAGGGTCCGAGTCGGGGTTGAGGCCCTGCTTGAGCTTCTCCTGGCCTCACCCTTCCATCCGTCCACCTGCCCAACCCTGTCATCCCGGACTAGGCGGGCACCTGCCCTGCCCGCTCCCCGCCCCGCCCGACGTGGCCCCCTGATGCCCCAGGAGGATGAGCTCAAGCCAGGGGCCCAACCCTCGGGGGCAAGATGCAGACGGGGTGGCGGGTCTCTTGGGGCAGCGGTGGGGAGTTCCCGAGGGGCTGCACCTTGGCCTCAGGACGGGAGTAGGGAGCACGGATAGGCTTAGCACGAACGCCCCGACCGTCAG
Seq C2 exon
GAACCCGCAGCGCGTGCGCGTGGTGCTGGGGGCCCACCGTCTGCAGACCCCCGAGCCCACCCAGCAGAGGCTCGGCATCAGTCGCCTGTTTGAGAACAACTACAACCCGCAGGAGAAGCTGAATGACGTGCTCCTGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046105:ENSBTAT00000064845:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.328 A=NA C2=0.292
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(21.5=68.7)
A:
NA
C2:
PF0008921=Trypsin=FE(22.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTCAGAAGAGGCGACTGC
R:
CTGCAGCAGGAGCACGTC
Band lengths:
342-756
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]