BtaINT0015963 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013191 | AGRN
Description
agrin [Source:HGNC Symbol;Acc:HGNC:329]
Coordinates
chr16:52677431-52678104:-
Coord C1 exon
chr16:52677993-52678104
Coord A exon
chr16:52677548-52677992
Coord C2 exon
chr16:52677431-52677547
Length
445 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
TACCCTGCACCTCCCCACAGGTG
3' ss Score
11.46
Exon sequences
Seq C1 exon
GAGCAAGGAGCCAGTGGCCCTGGGTGCCTGGACCAGGGTCTCCCTGGAGCGAAATGGACGCAAAGGAGCCATGCGGGTTGGTGATGGGCCTCGCGTGCTGGGGGAGTCCCCG
Seq A exon
GTGAGTCAGTGTCTCCTGGGCCACCCCCCTGCTCCCCGCCTCCCTCCTCCTCCTGGGAGGCGTGCAGCCCCCGCCCCACGGCTGGCGCTCACTGGACTGTTTTTTCTCCCCTCTGTCCTGGGCCTCTGTGTTTCCTCTCTGCTCCCACTGCTCTCTGGCCCTTGCTCTGCAACCCCCACCCCGCTCGCTCTTCGGATGTCAGAAATCCCGCAAGGTACCGTCTCTTCTCATCCTGCTCATCCATCTTCTGCCGCCTCCGCCCCTAGAGTAGCTCCTTCCCCACTAAGCCCCCACATCGCAGCCACATCTGTGTGATTAACTGCCTCCACCATGCTGGAGGGTGCGGGGTGGGTCACCACAGGCGGGCGGGCCCTGGTCTGGGGCTAGCATCGTGTTCCTGCTGGTGGGTAGGCTTCACTGCCCCTTACCCTGCACCTCCCCACAG
Seq C2 exon
GTGCCACACACCGTTCTCAACCTAAAGGAGCCGCTCTTTGTTGGGGGGGCCCCTGACTTCAGCAAGCTGGCCCGAGCAGCTGCTGTGTCCTCTGGCTTTGATGGAGCCATCCAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013191:ENSBTAT00000017563:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.230 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF0005418=Laminin_G_1=FE(28.0=100)
A:
NA
C2:
PF0005418=Laminin_G_1=FE(28.8=100)
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:
CCTGGGTGCCTGGACCAG
R:
GCTCCATCAAAGCCAGAGGAC
Band lengths:
201-646
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development