BtaINT0150428 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021280 | TMPRSS3
Description
transmembrane protease, serine 3 [Source:HGNC Symbol;Acc:HGNC:11877]
Coordinates
chr1:144225301-144226240:-
Coord C1 exon
chr1:144226092-144226240
Coord A exon
chr1:144225454-144226091
Coord C2 exon
chr1:144225301-144225453
Length
638 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
GCTCTTTCCTTGCCATCCAGGGA
3' ss Score
7.55
Exon sequences
Seq C1 exon
ACCCAGGTGATGCCTCCCCGGTCCTCAACCATGCGGCCGTGCCTCTCATCTCCAACAAGGTCTGCAACCACAGGGATGTGTACGGTGGCATCATCTCCCCATCCATGCTCTGCGCTGGCTACCTGAAGGGTGGTGTGGACAGCTGCCAG
Seq A exon
GTAGGGGCACCCAGTGACGTCTGGGGGCCACGCCGTGGGCAAGGTGACCCAGCCCTCAGGACAGACTACCGTCAGCACGTCCCTATGACCGACTGAAAAGCAAATTTACAGGGTGTGGGAAGAAGTTTGCTCAAGATATTGTTCCCTTTCCTGTCTGGCCAGGCCCGTGTTTACTCAACGCTCCCCTCTGCCTGGGTGCTGGGCGGAGGTGGCGAGGAGGGTCTCAGAGTTTCCAGGGGGTCCAAAAGGGCAGAGGGCAGGGGAAACCTGTGAATCTAGCCTGCACAGCCACAGTGGACGAGACTCCAACACTGCCTGGTTCAGCTGAAGCCCCTGGCCAGGCAGATCCTCCCTCTGAAAGCACCCCTCTGCTCCCCGTGCTGCCTTGACTTTGTGGGTTCAGGACTCTGAGCCCTGGCAGGGAGACAGCTGGAGGGGGACCATCCCCAAAGGACGAGGACCTCACCCTCAGGAGGGCAAATCAGTTCCAGAAGGGCAGTGGGGGAGGTGGTGGATGCAGCTCCATCCACGTGCTGTATTTTGTGATACAGTGAAGCAGGGTCCTGTCATCAGGACAGGTGACACATGGTGGCAATGTCTGTTCGTGCCCTTGCCTTTGCTCTTTCCTTGCCATCCAG
Seq C2 exon
GGAGACAGCGGGGGTCCCCTGGTATGTCAGGAGCGGAGGGTGTGGAAGCTGGTGGGAGCCACCAGCTTTGGCATCGGCTGTGCCGAGGTGAACAAGCCTGGAGTCTACACACGCATCACTTCCTTCCTGGACTGGATTCACGAGCAGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021280:ENSBTAT00000028354:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(21.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.7=88.2)
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:
ACCCAGGTGATGCCTCCC
R:
CTCCATCTGCTCGTGAATCCA
Band lengths:
302-940
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development