BtaINT0150424 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009132 | TMPRSS2
Description
Bos taurus transmembrane protease, serine 2 (TMPRSS2), mRNA. [Source:RefSeq mRNA;Acc:NM_001081585]
Coordinates
chr1:143219208-143221164:-
Coord C1 exon
chr1:143220993-143221164
Coord A exon
chr1:143219384-143220992
Coord C2 exon
chr1:143219208-143219383
Length
1609 bp
Sequences
Splice sites
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
3' ss Seq
TGTTCCTCTCTGTCTTCCAGACC
3' ss Score
11.64
Exon sequences
Seq C1 exon
AATGCGGGGTCTCGGTGAAGACGAGCCGCCAGAGCCGGATCGTGGGCGGATCGAATGCTTACTCGGGCGAATGGCCCTGGCAGGTTAGCCTGCACGTGCAGGGCATCCACGTCTGTGGGGGCTCCATCATCACCCCGGAGTGGATCGTGACAGCCGCGCACTGCGTAGAGGA
Seq A exon
GTAAGTCTCGAGGAGGAGGGGCCTGAGGAAGGGGGCGTGGCCTGAGGAAAGGGGCGGAACCAGAGGAGTAGGGGGCGGAGCCTGGGGTTCTGAGGCGGCTTTGCCAGAGGCCTTGAGCAAAGTCCTTGACTGCTGCAGGCTCCGGTTCCTTGGGGACAACTGGGGCTTCTAAGGGTGGCTCGCTGGCGTCACAGGGAGGGTCAGATGACTTGTGAAGCACGTGAAACTGTGGCCAATACATCCCATAGCGTGTGTCCATCGCTTTGAGTCAGCATAGGGATGCAGTGTAAGGCTGGAGTGATGCTATGATCAGAACGAATTCCAGTCCAGTCTTCTCAGCTCGGTCCTATCCTTCCTGAGGCCGCTGCCCTCTCGACAAGTTTGGGCTCCCTGGATGCTCGTCCCCAGAGAGACACTCAGAGAAACTTGGGGACACTCAAACCTCAGGCTGTCCTGCCAGAAGGTTCTCTGTGATCCATTAAGCAGCCTGGGCCCCAGAGTTGCCCATACAGATGGGTGGGGAGGGGTGAGGGTGGCCATCATTTATAGCGTTAGCTTTTGTAGACGATACCATTCTTCCTTCTTTTTTCTTAAACAAGGAATTTTTTTTGGTCACATGGATATTTTGAAAAACCCTCACTCATGGGAGTTGTTTGTCATGTTTAGAGTGAGGCTGGGCCTAACTTGGCTGTTCCCTGGCTGATTAGCCTCACACAGTTCACCCCAGGTGTCTGACAGTAGTGTCTGCACCTGTAAGTCAGGTGTGCTGTTTTGAGGGTTGTTGCGAAGGTTGAAGGAAGGAGTGTGTATAACTCAGGAGTGTCCCTTCCTTCCATCCACCAGATTCCATAGGCTCTAAGACTTGGGATTTTCTTAGAAGGGAAGCACCCAAAAGAAGGTAGTGCCTGGGTGGTTATTAGACTCAGAGTCTACTCCCTGGTACACATTTATTAAGCACCTACTGTGTGCCAGGAGATGTTCTAGTATATAAAGCTAAGTAAGACCCAGTCATGCTGGAAATAAGGTTTCAAACCTCAGGGAGATGTGTAGATTCAAGAATAAGTTGGGCTTCCCAGGTGGTGCTAGTCGTAAAGATCCTGCCTGCTAATGCAGGAAACTTAAGAGACATGGGTTTGATCCCTGGGTCAGGAAGATCCCCTGGAGGAGGGCAGGGCAACCCACTCCAGTATGCTTGCCTGGACAATTCCATGGACAGAAGAGCATTGCAGGCTATAGTCTATAGGGTCACAAAGAGTCAGACATGACTGAAGCGACTTAGCACACACGCATAAGTGTTCTTGGAATTGCAAGTGTTTGCAGGCTGGTGCAGAAATATGGGAGGAAAATGATTCACTGATGAAGTAAAGGAGAGGTGAGGTGGGTGTAAGTAAAGAGGAGGGTGAGGCTGTGTAAGATGGGGTGTAAGTAAAGAGGAGGGTGAGGCTGTGTAAGATGGAGAGAGAGAAGAGCCTGAGACCACCTGGCCATTCTGGTGTGGCTTCTGACAAGTCATGTCACCTCGGGGGCTGATGACTTTTGAGAACTGTGGAATGCGTGTTTTGTATTTGCCATTCTTACATGCTGAGCGGTGTTCCTCTCTGTCTTCCAG
Seq C2 exon
ACCTCTTAACAATCCCAAGATCTGGGTGGCCTTTGCAGGAATCTTGAAACAATCTTACATGTTCTATGGAAGTGGATACCGAGTAGCAAAAGTGATTTCCCACCCAAATTATGATTCCAAGACCAAGAACAATGACATTGCGCTAATGAAGCTGCAGACGCCTCTGACTTTCAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009132:ENSBTAT00000012036:8
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(5.2=8.6),PF0008921=Trypsin=PU(19.2=75.9)
A:
NA
C2:
PF0008921=Trypsin=FE(25.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGTCTCGGTGAAGACGAG
R:
CGTTGAAAGTCAGAGGCGTCT
Band lengths:
343-1952
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development