BtaINT0139154 @ 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
chr15:32717630-32719969:+
Coord C1 exon
chr15:32717630-32717785
Coord A exon
chr15:32717786-32719819
Coord C2 exon
chr15:32719820-32719969
Length
2034 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TTAAAAACCTTTTCTTCTAGCCA
3' ss Score
5.86
Exon sequences
Seq C1 exon
ATTCACATATTCTTCCCTCCCCCACTCCCGGGCCCTCCACGTGTCTGCCCAATTACTACCGCTGCAGCAGTGGGGCCTGCGTGATGGACAGCTGGGTGTGCGACGGATATCGAGACTGTATAGACGGCTCGGACGAGGAGGCCTGCCCCTCGCCTG
Seq A exon
GTAAGTATGGCCCCAGTCCTGACCCGGGCACCTGCTTCAAGGAGAGGACCTTTGAGGCTGCACCCTGGGTGGCCCAGGGCAGTGCCCTGCCCTGGGGGACTCTGCTCTGTGGCCAGGCTCCTTCTCACCTCCAGAACAGGGAGATCCCTGGGCACTCAGAAGTCATCTTCCCTCACTGCCCTCCGTACCTGGCTGACCACCGTGGCTGCTTCCTCTCCCAGGAGGTTACCGTGGGGATTGTAGGGAAGGTCTCTGTACTAAACTCTGCTAAATCTCTGGTTTGCTAGTTGGCAGCCATCCTATTAAAAGAAGGGTAAGCAGTGCCATCTAGTGGCTGAACATGGCAAGGTACCTGGAGGTCTGTGCTTTCACCTTGTTGCTGGAAGCCGGGATAAACCCTGAGACCCTCGTCAAGGCGCCCCGGTAACTGCAGGCAGAACTGTGTCTTTTTCCCAACAGGTTTCCATTTCAGAGTCAATTATAATAAGAGAATAGATCATCACTTGCCGCGGTTTATATAATTCTTTTCAGCAAATTCCTAGATCCTTTAAGACTGTTTTCATCCCATCTCTTCTCTGTTTAAAATCGTGAGTGGTGGGATTTCCCTGGCAGTCCACTGGTTAAGACTTCACCTTCCAATGCAGGGGGCTCAGGTTCAATCCCTAGTTGGGGAGCTAAGATCCTACATGCTTTGTGGCCAAAAACCAAACCAAAACGTAAAAAACAGAAGCAATACTGTAATAATTCCATAAAGACTTTAAAAATGGTCCATATCAAAAAATCTTTAAAAAAAAAAAAAGTAACTTTTTAAAAGGCTCATCACTGGTTTATGCTTGTCCTCTTGTCCAGAAGATAGACCCTAACCCTTGAGTCCTATTTTCAAGGCCCTGTTTGAGCCCTGTTAGACCCTTTGTCAGAGAAAGCAATGACACCCCACTCCAGTACTCTTGCCTGGAAAATCCCATGGATGGAGGAGCCTGGTAGGCTGCAGTCCATGGGGTCGCTGAGGGTCGGACACGACTGAGCGACTTCACTTTCACTTTTCACTTTCATGCATTGGAGAGGGAAATGGCAACCCATTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACGGAGCATCCTGGTGGGCTGCTGTCTGTGGGGTCACACAGAGTCAGACACAACTGAAGTGACTCAGCAGCAGCAGCAGCAGCAGACCCTTTGTGCTTGCCATGACTTATCGCTTCCGTACGCTGGGCTCCTCACTTGCTGTGGACAGACCTGCCTCTTGTTTACTTAGATTCCTCCAGCAGAACTTGTGCCCTGTCCACCTTGATGTTGTCCCCTTCTTGCCTTCTGTGAAGCCCACTGTCCATCAGGGCAGACAGAAGCATGGGATGCCAATATGTCATCACTATGTCTTGCGTTACAGCATGTAGAGCACCTGTAGGGAATCACTTGGGTAGTTTCTAAAAAGTGTAGAATATCTTATGTATTTATATATATTTTTCCTATGTTTAAAAAAATGCAGAATCAGAATTTCTGCCTGGAGCCCATGAGCTCCCCATGTGAATGACAGGTTGACTGATTGTCTTGTGGGGATAGGGAGGCGGGGGAGTGGGGAGTCTCACGGCTGCTTTAACATCTTTCAATGGCTCCCTTATATAATTTTCACCCTTTTCTCTCCTGGCCAAAGGATACCATTTTCCAGTCTGTTTGCAGATTCTGTGAAGTTGGTCTTAATGGAGCTTAGCTTTCTCCCGTGACAGCCTGGGATAGAGTCCTCTCTTCTCTGAAGTCTCTAGCCACTCAGCCCTGTCTGTCAGCTTCCCAGTTTCCAAGGTTCTGTTGCTTTTGTCTCCATCAGGGGCTTCCCAGGAGAGAAGCAGGGTGAGATGCTCGTGTCTTATCAATCTGCCATCTTCGCCAGAGCTCACATGTCTGTTTGGGTTCCCATCGAAATTCCCAGAGCACCGACATCCCCAGCACATCTAACAGGTCGCTGTTGCTGGCCTCAGTATTAAAAAAGTGAATTTTAAAAACCTTTTCTTCTAG
Seq C2 exon
CCAATGTGACTGCTGCCTCCACGCCTACCCAGCTCGGGCGGTGCGACCGGTTTGAATTCGAGTGCCGTCAACCGAAGAAGTGTATCCCCAACTGGAGGCGCTGTGACGGCCACCAGGATTGCCAGGATGGCCAGGACGAGGCCAACTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014611:ENSBTAT00000019457:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=69.8)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=74.5)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development