Special

BtaINT0139150 @ bosTau6

Intron Retention

Gene
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


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
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