BtaINT0139150 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014611 | SORL1
Description
Bos taurus sortilin-related receptor, L(DLR class) A repeats containing (SORL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192757]
Coordinates
chr15:32714643-32715741:+
Coord C1 exon
chr15:32714643-32714774
Coord A exon
chr15:32714775-32715609
Coord C2 exon
chr15:32715610-32715741
Length
835 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
TATGTTGGTTCCTTCCCTAGCCC
3' ss Score
8.32
Exon sequences
Seq C1 exon
AGCCCCTGTGTACTCGCTTCATGGACTTCGTGTGTAAGAACCGCCAGCAGTGCCTCTTCCAGTCCATGGTGTGTGACGGCATCATCCAGTGCCGGGACGGCTCTGACGAGGATCCGGAGTTCGCAGGATGCT
Seq A exon
GTGAGTCGGGGCGCTGGAGAGACTCGGGTGGGCCACCCCAGGCATGTGCCTCCGTCCAGTTTTCAGGTCTCCACTGAGGGTCCAGACTTGCGTTTTCTAAGAAAGGCTCACCTTGGCTGCTTTGGAAGCTTGCTTGTTAGTCGTTGGTGCACAGCTCAGGGGGGCGGGGTCAAGGTCGACCGTGGTCTTGGCCCACGTGTCACCTCCTTCGCAGCCTTTCTTGTGCCCCGAAATGGCCCCTCACCTTGCCGCAGTGTCTGTGCCCCGCTCACCTCCACTCTGCACACTGGAGTTATTTTAGCCGGCCTCCCCAGCTGGTGCCCGAGAGCCGGTCCTTGTCTCGTTCACGGCTACAGCCCTGTCCCCAAGACTGCCCTGCCTGCATGATAGTAGGGACTTGCATCAGTCTGCTCAGGCTGCCCAAACAGAGGACCACAGCCCAGGGGGGCTTAATCTCTTAACAGTTCTGGGGGCTGCAGATCAGGGGTTAAAGTGTCGGCAGGGTTGGTTTCCTCTGAGGCGCCTCTCCTTGGCTTGTAGACGGCCATCCTCTGTCTGTGTCTTCACTTACTCTCCTTATGAGAACACCAGTCCTGTTAGATTAGGGCTCCATCCTAATGTAATGACCTCATGTTAGCTTAATTACCCCTTCAAAGACCTTATCTGCAGATGTTGTTGCAGTCTGAGTTGCCGGGGGCTTTCGAGGAATCCTCCAGCCGGGCCATCTCTTGGTGGAGGGCCTTTGTTCTTGCCTCTTGTTTCCAAACAACAGTGCCGCGTTGAGCTCTCCAGTGTGGGAGTAACCTGGACTTATGTATGTTGGTTCCTTCCCTAG
Seq C2 exon
CCCGAGACCCCGAGTTCCACAAGGTGTGTGACGAGTTCAGCTTCCAGTGTCAGAACGGAGTGTGCATCAGTTTGATCTGGAAATGTGATGGGATGGATGACTGCGGCGATGACTCCGACGAAGCCAACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014611:ENSBTAT00000019457:28
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:
PF0005713=Ldl_recept_a=WD(100=93.3)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=82.2)
Main Inclusion Isoform:
NA

Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCTGTGTACTCGCTTCATG
R:
CACAGTTGGCTTCGTCGGAG
Band lengths:
262-1097
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development