BtaINT0139136 @ 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
chr15:32674612-32675641:+
Coord C1 exon
chr15:32674612-32674740
Coord A exon
chr15:32674741-32675555
Coord C2 exon
chr15:32675556-32675641
Length
815 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGT
5' ss Score
8.1
3' ss Seq
TTGGGGGGGGGTGGTGACAGATA
3' ss Score
-1.33
Exon sequences
Seq C1 exon
TGACTTCGGCTTCAAGATGAGTGAAGATTTGTCACTGGAGGTTTGTGTTCCGGATCCGGAGTTTTCTGGGAATTCATTCGCCCCTCCCGTGCCTTGTCCTGTGGGTTCTACTTACAGGAGAACCAGAGG
Seq A exon
GTAGGTCACAGTTGCCATGTCCGGGACACATCAGGTCTGCTTGGCTGGAGAGTGTAGGGGACCACCTGGGTTCCTTTCATACTCTCAATGACAGAATTCCACATTGGCATCTTTCAGGTAGCTTGCACAAAATTTAACATTGTGATGTTCGCAAACTCTTCTCCCTGCCCCACCCACCATGGGGAAACAGTGCAAGTCTGTAAGCTTCTCTGAAATTCCAGTTGCTTCTTAAGTCATAAACTTCAGCCAACGCATGTCTTCAGAGTGGCATGTTGAAGAGATATGGTTGACCTTGGAACAATACACATTTTAAATGCACAGGTCCACTTATAAGTGGATTTTAATCAATAAATATAGCACCCATATTTTCATTTTACAGATCTTAATTAACTAAGTGTGGGGAAACGTTTGTGGTTTATTAGAGATCACAATACATAGAATCAAAAGAACTAGGATTCTAGCCCCAATTCTCTTCAGACTGTTTGAGTTTCCTACCTTTGGGGGAGTTATTTATGAATTTCTTTGATTTTGAGGGAGAGAGAGCAGTTATGCAGATTTTTACCTGTTGGAGGGGTGTCAGTGCCCCTAACCTTCAAGTTGCTCAAGGGTCAACAGTGTATGTGAAACCCACCTAGGACCGTGCTTCAGAATGTTGGGCTGCCTAATTGCTTTACAGACAGAAGCAGTTCAGAGTGAGTCAACCTCCTCCTCCGTGCTCTGTAGGAAAATGAATAGATAAGCTCTAATGTCCGTGTTCCTTCATGATTGTACTCTGATGTTTCTGACTTCTTGCTTTTGGGGGGGGGTGGTGACAG
Seq C2 exon
ATATCGGAAGATTTCTGGGGACACCTGCAGTGGGGGAGATGTCGAAATGCGCCTGGAAGGAGAGCTGGTGCCGTGCCCCTTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014611:ENSBTAT00000019457:15
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACTTCGGCTTCAAGATGAGTG
R:
ACCAGCTCTCCTTCCAGGC
Band lengths:
198-1013
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development