BtaINT0150419 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009132 | TMPRSS2
Description
Bos taurus transmembrane protease, serine 2 (TMPRSS2), mRNA. [Source:RefSeq mRNA;Acc:NM_001081585]
Coordinates
chr1:143234533-143235417:-
Coord C1 exon
chr1:143235331-143235417
Coord A exon
chr1:143234647-143235330
Coord C2 exon
chr1:143234533-143234646
Length
684 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TCCCTCTGTTTCCCTGAAAGTGG
3' ss Score
5.83
Exon sequences
Seq C1 exon
AGACTAAGAAAGCCCTGTGCATCACCTTCACCCTGGTGGTCCTGCTGGCAGGAGCAATCCTTGCCGCCGTCCTCCTCTGGAAGTACA
Seq A exon
GTAAGTGCTGGCCAGAGCTGAGTTGCATTGTGCTGGCCCTTCAGCAGCCCTGGTGCCTGGACCAGGGGCCCACCCCCAGCCCCTCATGAAGTTTCCCATCTCTTTCCTCCTGTTTGACTACTAGATGCTTGAATAACCTTTCTTGGAAGCTGCCAGTCTTGTTGGCATACTTCCTCCTCATCTGTGGGTTGTCAAGATCCCATGTCCTTTGCGTGGTATTGACACATGCGGGAGAAGCACGTTGAGTTCACCCTATGCTTTAGGACCCTGAGTGGGGCCTGGCACTTGTGAGCACCCGCACCTAGGGGGCACACCTGTCTCCTGCATTTCAGTGTACATGGTGGTGGCTGGAGGCCTTCCCTCCCCGGGGACTCCTGTACCCACAGCCAGGCCTCCTCCACCAGCCTGGGGCGGGGATCATGGGTCACAGGACTCACCTGTGTGGCGGGGGTGTGGGGAACTGCTGACGTCCCAGGTTAGGGACCCACTTCTGACCGGAAGTAATAAACCTGGGGGATTCACCATTGCTCTGGCCAGCCCTGCTTCCTTTGATATATGCTGTTGGCAAGTACCCATCTCCTCCTTTTAAAATAGAGGGGGATGGCTTGCTGTCTCTTGTCCCGAGGGCTGAGGGTGTCCTTGGTTTCTCAGCCTGATGAGCATCTCCCTCTGTTTCCCTGAAAG
Seq C2 exon
TGGAGGACGAGTGTTCAGGGATGGAGTGCAGCTCCTCCGGGACCTGTGTTAGCCCCTCTCTCTGGTGCGATGGCATCCTGCACTGCCCCAGTGGCGAGGACGAGAACCGCTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009132:ENSBTAT00000012036:3
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:
PF126692=P12=PU(23.8=66.7)
A:
NA
C2:
PF126692=P12=FE(45.2=100),PF0005713=Ldl_recept_a=WD(100=89.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACTAAGAAAGCCCTGTGCA
R:
GCAGCGGTTCTCGTCCTC
Band lengths:
200-884
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development