BtaINT0150451 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017650 | TMPRSS5
Description
transmembrane protease, serine 5 [Source:HGNC Symbol;Acc:HGNC:14908]
Coordinates
chr15:24579292-24579861:-
Coord C1 exon
chr15:24579719-24579861
Coord A exon
chr15:24579448-24579718
Coord C2 exon
chr15:24579292-24579447
Length
271 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGG
5' ss Score
9.13
3' ss Seq
CTGGTGGCTGGATCCCTCAGGGG
3' ss Score
4.82
Exon sequences
Seq C1 exon
CCCGCAGCTCCGACGTGCTCCAGGACTCCGTGGTCCCTCTGCTCAGCACCCAGCTCTGCAACAGCTCTTGCGTGTACAGCGGGGCTCTGACGCCCCGCATGCTGTGTGCCGGCTATCTCGACGGGAGGGCGGATGCGTGCCAG
Seq A exon
GTGCGGCCGAGGGCCTGGTGCGGGGCGGGGGCTGCGGGCTGGGCGCCTGGCTGACGTCTTCTCTGGTAGCAGAGGAAGAGCCCAGGCAAGTGGGCAGCGCAGTGAGGGTCAAGGATGGGTGAGGCGAGACAGGATTCATCCTGCAAGCAGGACGGCTTGGAGTGCAGGGTGCGCGCCCAGCCTGGGGTGGGGGCGGGGAGCACGCTGGCGCCTCTCCACCAGAAGGGACTTAACTGCCCGCTTCTCTGTGTCTGGTGGCTGGATCCCTCAG
Seq C2 exon
GGGGACAGCGGGGGTCCCCTGGTGTGCCTGGACGAGGGCACGTGGCGCCTGGTGGGGGTGGTCAGCTGGGGACACGGCTGCGCAGAACCCAGCCACCCCGGAGTCTACGCCAAGGTTGCCGAGTTCCTGGACTGGATTCAGGACACGGCAGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017650:ENSBTAT00000023479:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.3=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.5=86.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCTCCGACGTGCTCCAG
R:
CGCTGCCGTGTCCTGAATC
Band lengths:
292-563
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development