BtaINT0150436 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021280 | TMPRSS3
Description
transmembrane protease, serine 3 [Source:HGNC Symbol;Acc:HGNC:11877]
Coordinates
chr1:144229427-144230454:-
Coord C1 exon
chr1:144230289-144230454
Coord A exon
chr1:144229597-144230288
Coord C2 exon
chr1:144229427-144229596
Length
692 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
TTGGGGCTGTCTCATTTCAGTCT
3' ss Score
7.09
Exon sequences
Seq C1 exon
CCTGCGGTCTGAGGACGGGCTCCAGCCCCCGCATCGTGGGTGGAAACACATCCTCGCTGGCTCAGTGGCCCTGGCAGGCCAGCCTGCAGTTCCAGGGCTACCACTTGTGCGGAGGGTCCGTCATCACCCCACTGTGGGTTGTCACAGCTGCCCACTGTGTTTATGA
Seq A exon
GTGAGTTCTCCTGACCTCCTGGTGGGGGGCATTCTCATCTCCCACAGACCCCCGTCCAGTACAGGCCACATGGGGACAAGGCTGATTTGGGTGGTCAGCAGCAAGGCAGGTCAAGAAAGCGTGAAACAGACCATATCGTCACAAGGTCATGTCCACAGACCATCCTCACTGTGGATTCAGCTCCGTCAGCTAGGTGGGATTGGTGACTCCAGGATCATTTTAAGGACCTTCAGCTCTTACAGAAAAGATAGAAAGAGGGGAAGGAAACTCTCATGTTTAGGAAACCCAGCAATGCAAATCCCCTAGACCTCCTCGTAGCTCATTCCCATGGACCATGTTGTGACTGAGAGAGAGAGGGGTGCGGGGTGGGCGGGGTCTCCCCAGAGCAATCTCTGTTAGGGGGTTTGGCGTGGAAGAAAACCACAGAAAATACTTCCAAACACAGTAGCAAGTGTCCGTGTTATTTCCACCTGCCTCTATTTCGATTTCTGATGGAGAATGGGCCATTATGGAAAGATGAGCTCATTTCTCAAATGCCCAGAGGTGCAGAGATCAAGGCCTGTCTAGGGGACACACGGGTGGATCTGCGCTTCTGCAGGGCTTGTGCGGGCACCTCCTGCCACCTCCTTAGCACTGGCTCTCGGGAGACTTGTGATCTGTGGGTGAAAGTGCTTGGGGCTGTCTCATTTCAG
Seq C2 exon
TCTCTACCTCCCCAAGTCCTGGACCATCCAGGTGGGCCTTGTTTCCCTGCTAGACAGTCCAGCCCCCTCCCATCTGGTGGAAAAAATCATCTACCACAGCAAGTACAAGCCGAAGAGATTGGGCAATGACATCGCCCTCATGAAGCTGGCCGGGCCTGTCACTTTCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021280:ENSBTAT00000028354:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF154941=SRCR_2=PD(5.0=8.9),PF0008921=Trypsin=PU(19.2=78.6)
A:
NA
C2:
PF0008921=Trypsin=FE(24.9=100)
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:
CTGCGGTCTGAGGACGGG
R:
CATTGAAAGTGACAGGCCCGG
Band lengths:
335-1027
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development