BtaINT0150417 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009132 | TMPRSS2
Description
Bos taurus transmembrane protease, serine 2 (TMPRSS2), mRNA. [Source:RefSeq mRNA;Acc:NM_001081585]
Coordinates
chr1:143211539-143214307:-
Coord C1 exon
chr1:143214155-143214307
Coord A exon
chr1:143212399-143214154
Coord C2 exon
chr1:143211539-143212398
Length
1756 bp
Sequences
Splice sites
5' ss Seq
AGGGTAACC
5' ss Score
5.4
3' ss Seq
TCTTTTTCCTTTTTGAACAGGCA
3' ss Score
9.81
Exon sequences
Seq C1 exon
GGTGACAGTGGAGGTCCTCTGGTCACACTGAAGAGCAGTGTCTGGTGGCTGATTGGAGACACGAGCTGGGGGTCAGGCTGTGCCAAGGCGTACCGACCGGGAGTGTACGGGAACGTGACAGTGTTCACAGACTGGATCTATCAACAAATGAGG
Seq A exon
GTAACCTTTCCATCCTCCTGATCGGCTCCCCACTTCACTGTGTCAGAGCCTGGGGGCCTAGGAGGTGTGGTCCTGTGACAGGTCGCACCCCTCCCCATATGCGTTTGGATGAAAACTTCTGGGTCCCAGCTTTGCAGGGTCCAGGGTTACCTGTGATGGGCTTGCTTCTGGCTCTAATAGCTCCATTCACCTACTCAGATGTCATTGCATCAAACTTCTGGGGATGGGCAGAAAGCAGAGCGAGGCTGCCAGGCATGATTCAGGCCTATCCTTCTCTGGGCTGTCACAGGCACCCAGGGGAGCAGCTGGGGTCTCTGGTACAAGGAGAGGGCATGAGAAGGGAAAGATCCCAGGGGTTCCTGGTGCCCCTGCTGCCTCTGGCTTCTGGCCTGGTGCATGATACTCAGAGGGGCCCAGTCTTGGGTCCTGTCTGGATCCTGGGTGAGGACTGGATGTCTGTCCATCGCAGGGGCCTTGGGACTGGGCAGTGCTCACAGATTTTGGCTCCTTCCAGGGCCAGGTTCCAGGTGAAAGTCCCGTCTCCCTCAAGTCTCCAAAGGTGCCCAGGTGCCAGGAGATGGGGCAGAAGCCGAGCGCAGTGCCTGGTGAGGCATGGCCTGTGTCTCTCCTGAGCCCAAACCTAAGACCTAACACCTTCAAGTGACTCGGGGCCCAGCCAGTCCCCGCCCCACAAAGGGCCGAGTTCTGAAAATTCATGACCCCCACTGTCGCACTGAGGACCTGCATGATGCAGGCAAGCTGGGAGGGGGTCCTGGGGAGACTGGCCGGGGAGGTGAGGCAGGCCATGGGGTAACTGTCCCTCCAGGATGAGAGAGCGAACAGGCACCGTGTGTCTAGGCAATGCTGGTGGCTCATCAGCAGGAAGTGGTGGCGGGGGTGGGGGGTGGTCGGCTGGATGACAACAGAGGAGGTGGAGTAGAAAGCAGGACTACGTAGACCATGGATGACTTTCAGTGGCTAAGGTCATGCTTGGTTGGCCCAGAGATGCCTGTGTCCCAGCGGTGCTGAGTGATGGGACCCCCCCCCCAACATCCCGGCCCCTCCTGTCCCTGGGCCTTTGCACATACTGTTCTCCTCCATTGTCAGTCTAACCCAACCTTCATGCTGTAGAAAAAAATATCCCTTTGTCTTATTTTTTAAATAATTTATTTATTTAATTCTTGGCTATGCTGGGTCTTTATTGCTGCACAGACGTTCTCTCATTGTGGTGAGCGGGGTTTACTCTCTCATGGTGTGAGCAGGCTTCTCATTGCAGTGGCTTCTCTTATGGGGGGTTTCCCAGGTGACGCTAGTGGTAACGAACCTGCCTGCCAGTGCAGGGAGATGTAAGAGACTTGAGTTCGATCCCTGGGTTGGGAAGATCCCCTGGAGGAGGGCACAGCAACCCACTCCAGTATTCTTGCCTAGAGAATCCCATGGATAGAGGAGCCTGACGGGCTTCGGTCCATGAGGTCACAAAGAATCTGGCATGACTGAAGCAATGTAGCATGCACTCTTGTTGTGGAGCACAGGCTCTAATCCCAGGCTCAGTGGTTGTGGTACATGGGCTTAATTGCTCCGAAGCATGTGGTATCTTCCTGGATCAGGGATAGAACCCATGTCTCCTGTGTTAGCAGGTGGACTCTTTACCACTGAGCCACCAGGGAAGCCCTCCCTGTCAATGTAGGGGAAAAATAATTTTCTGCCTTTGTTTGTCTTAAGAAAATAATATCGTTTCTTTTTCCTTTTTGAACAG
Seq C2 exon
GCAAACAGCTAATCTGTATGGCCTGGGTCCTTGACAACATTGCACAAGAAAAAGAAGGGGCTGATTGTTAATCCCCACGCATTATGTATTTTTTGAAGTGATTCCAGGTCCTTTTGTTTTTATGCGATCATGATCCTGTATGTCTTGGCCCTTTCCACAGTTCTGTGCAGACCCCGTGGCTCCCCTACCCCCGGGCCCACCCTTCCAGACCCCTCATCTGACCGGGGAGGCTGGCTGGCCATGGACAGCAGAGCCAGCGCAGAGCAAGGGGACGGGGTCTGCCCCGCGGGGACCTCCCCTCTGAGTCCCACTGCAGGGACTCCTCGGATTCACAGGGGGCTGGCGACTTCTCAGCTGCTGGACGGCTTGAGAAAGGAAGGCGAAAAGCCTGGCAGAACCTGCAGGGGCCAGCCTCTGGGGCCACTGCTGGTGAGACCACTTAGGGTAGCCCCAGGGCCTGTCTCTCCACGAGGGAATTTGATGAACATTCTTGAGTGCCTTCTTAGCAGCCCAGAGTGCTGGCTGGAAATAAAGGGGCCAGCTCTTCATGGGTGATGACTTGATAGACACTTGAAAGGGGACCCAAACCTTTTTCTTTCGGGGGGTGTGTAGACAGAGCCCTGGGAACATATGTGATCACCCCCAGCATTGCTGGGGGCCCCCACCCAGGGAGACCCGCCTTATTCTCCAGTCTCTCTCTGGCCTCCCTTGAAGATGGTGCAATGCCCCGGGCCCCCACTGAGGTCTTCACCCCGAGTAGGGTGCCTGCTGACCCTCTTAACGCCTGCTAATCATTCACCTGGAAATCGAGCTCACCCAGGGAAATCAGGGATACTAATTAAAGAAACACTGTTTCCTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009132:ENSBTAT00000012036:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(19.7=88.2)
A:
NA
C2:
NO
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:
CTGAAGAGCAGTGTCTGGTGG
R:
GGTCAGATGAGGGGTCTGGAA
Band lengths:
349-2105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development