BtaINT0043704 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008944 | CRB1
Description
Bos taurus crumbs homolog 1 (Drosophila) (CRB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192482]
Coordinates
chr16:78256919-78258858:+
Coord C1 exon
chr16:78256919-78257466
Coord A exon
chr16:78257467-78258692
Coord C2 exon
chr16:78258693-78258858
Length
1226 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
GTGATTTACTGTCTACTCAGCCC
3' ss Score
4.42
Exon sequences
Seq C1 exon
AGTATGTGGCAGGCAGATTTGGCCAAGATGACTCTCCTGGATATGCTGTTTTTCATCTCAACAAGGATTACGAAGAGGACCTCACACTCTCCATGTTTGTTCGAACACGCCGTCCGACCGGCTTGCTCCTAGCTCTAGGAAACGGCACTTACCAGTACCTCCGTGTCTGGCTAGAGCATGGCAGGCTAGCGATGCTGACTCCAGGTTCTCCCAAATTACTAGTAACATTTGTTCTCAGCGACGGAAATGTCCGCTTGGTATCTTTGAAAATCAAGCCAAATAAAATTGAACTGTATGAGTCGTCACAAAATCTAGGATTTCTTTCTGCTCCTACGTGGAAACTCCAAAGAGGAGATGTCCTCTACGTTGGTGGACTGCCTGACAGGCGAGAGACTGAGGTTAGTGGTGGATTCTTCAAAGGCTGTATCCAAGACATGAGGCTAAACAACGAGAACCTGGAATTCTTCCCAAATCCAACGAGCAGCGCAGCCCACAATGCCGTTCTTGTCAATGTGACCGAAGGCTGCCCCGGAGACAACCTGTGTGAG
Seq A exon
GTAGGATTACTCACATGGACCCTGTCCTCACTGTGTCCCCTCCCTCCTGAACCCCCTCCCACCCCACCCTGCCCGCCCCTCCAGGCTGTCCCAGAGCATCAGCTTTGGGTTCCCTGCGTCATGCATCCAGCTGTCACTGTTTTACATGTGGTGATATGTATGCTTCAGTACTATTCTCTCAAATCATCCCACCCTCTCCTTAATGTCTCTTAAGATTGTTTTTGACGTGAGCCATTTTTAAAGTCTTTATTGAATTTGTTACAATATTGCTTCTGTTTTATACTCTGGTTTCTTGGCCTCAAGGCATGTGGAATCTTGATCCCCTGACCAGGGATTGAACCCACACCACATGTTTTAGAAGGTGAAGTCTTGACCACTGGACCACCACGGACCAGGGAAGTCCCCAGATGACATGTTAATAGAGTGATGGACATAAGTGCAGATGGAGCTCTCAGAGATTCCTTTGTCAGTGCTTCTGTTTTGATTACTTTGTGAGCAACCTTGTGAGGACTCAGATGATAACAGTATGTTTCTGATTCAGAGGTGGGGCTCCTGGAGGGCAGAGGTGTCGCTCTATGGGGACCCAGAGGATCTAAGTACCAGCTTCACCGTTTGGCTTTTGATAGGATCTTGGAAGGGCTTCCCAGGTGGCTCCCTGGTAAAGAACCCACCTGCCAATGCAGGAGACATAAGAGACCCAGGTTCAATCCCTGGGATGGGAAGATACCCTGGAGGAGGGCATGGCAACCCACTCCAGCATTCTTGCCTGGAGAACCCCATAGACAGAGGAGCATGGTGGGCTCCAGTTCATGGGGTGGCAAAGCGTCAGACACAACTGAAGCAGGCACAAAAGCACACACAGGATCTTGGACAATGAACGGGACCTCAGTTTCCTCACCAGGAGAAACGAGAGGTAAAGTCTCTAACTCAAAAGATCATTAGTGTCATTGAAAGTGTTTGGTAATTTGTAAATTATAGAGACTATTATTACACCTTTGAAAATCTCCCTTGTGCTACAGGAGATCAATATTATATATTTTTATTTATTTCCCTTTTCCTTTTGATGGTAGCAGTAAGTTTTATTCTACTTACCAGCCAACAGATATAAAAATGTTCGATACGTAAATAAGTAGGAAGTTAACATGAACAGATTCGGGGTCTTGCTTGGCTCCTTTCCGCATTTAGCTGCCAGAGCTCCTTACGCCTGTGATTTACTGTCTACTCAG
Seq C2 exon
CCCAACCCCTGTCACCACGGAGGCATCTGCTACCCGCTGTGGGACGACTTCTCCTGCTCCTGCCCTGTGAACACAGCCGGGAAGGCCTGCCAGGAGCTGCGCTGGTGTGAACTCGGCCCGTGTCCTCCCGGCGCCCAGTGCCTGCGGCTGCCTCGAGGCTTCGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008944:ENSBTAT00000033880:7
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:
PF0221019=Laminin_G_2=WD(100=64.5),PF0000822=EGF=PU(3.2=0.5)
A:
NA
C2:
PF0000822=EGF=PD(90.3=50.0)
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:
TTCTCAGCGACGGAAATGTCC
R:
AGATGCCTCCGTGGTGACAG
Band lengths:
345-1571
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development