BtaINT0150416 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009132 | TMPRSS2
Description
Bos taurus transmembrane protease, serine 2 (TMPRSS2), mRNA. [Source:RefSeq mRNA;Acc:NM_001081585]
Coordinates
chr1:143214155-143214643:-
Coord C1 exon
chr1:143214501-143214643
Coord A exon
chr1:143214308-143214500
Coord C2 exon
chr1:143214155-143214307
Length
193 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
TAACCTGCTGTGTCCCCCAGGGT
3' ss Score
9.48
Exon sequences
Seq C1 exon
GGAAGACCTCAGATGACCTGAACGCGGCCAAGGTGCACCTCATTGAGCCCCGGAAGTGCAACAGCAAGTACATGTATGACAACCTCATCACGCCCGCCATGATCTGTGCAGGCTACCTGCGGGGCACCGTCGACTCCTGCCAG
Seq A exon
GTGATGACCAGCTGGGCTTTGCCCGGCTCCCACTGGGCCCATTAAGTGTGTCCCTCCCCTATGTGGGACCCGGGGTTGGAGGAGACCTGGAGACTGTCCCGTCACCCCGCTGAGCCCTCATTCCACCTTCTTGCCCTCTGGCCTGTGTGGCTTGTGGATTGACTTCTGTTCTGTAACCTGCTGTGTCCCCCAG
Seq C2 exon
GGTGACAGTGGAGGTCCTCTGGTCACACTGAAGAGCAGTGTCTGGTGGCTGATTGGAGACACGAGCTGGGGGTCAGGCTGTGCCAAGGCGTACCGACCGGGAGTGTACGGGAACGTGACAGTGTTCACAGACTGGATCTATCAACAAATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009132:ENSBTAT00000012036:11
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:
PF0008921=Trypsin=FE(20.5=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
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTGCACCTCATTGAGCCC
R:
TGTGAACACTGTCACGTTCCC
Band lengths:
242-435
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development