BtaINT0015949 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013191 | AGRN
Description
agrin [Source:HGNC Symbol;Acc:HGNC:329]
Coordinates
chr16:52681813-52682362:-
Coord C1 exon
chr16:52682030-52682362
Coord A exon
chr16:52681951-52682029
Coord C2 exon
chr16:52681813-52681950
Length
79 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTCAGACTGTACCTCCCCAGGAC
3' ss Score
6.47
Exon sequences
Seq C1 exon
AAGGCATCACTTCTGGTCCCCGTGTGACATCCGCATCTGTGGCTCCCTCAGCACTTGACCTGAACAAGGCACCATTGCCGCCCCCCAGCGCCTTGCCCCTGGCTCCCAGCAGTACCCGCCACAGCCAGCCCACTTCTCGAGCCTCATCACAACCTTGGACCATGGCCAGCATCCCCAGGACCACTGCAAGGCCAGTGCTGACCATGCCTCCCGTGGCCCCCTCCCCGGCAGCCAGCCTCGTCACCTCTGCCTTCGGCGAATCTGGCAGCGCTGATGGGAGTGGTGACGAGGAGCTGAGTGGTGACTTGGAGGCCAGTGGGGCTGGCTCAGGAG
Seq A exon
GTGAGCATGGGCTCTGGGACCTGGGGGCAGGGCCCAGGAGGACTGCACCTGCAGCTGGGCTCAGACTGTACCTCCCCAG
Seq C2 exon
GACTTGAGTCCCCGGAAAGAGACAGTGCTGGGACCCCTGGGCTACCCATGGAAAGGGCTTCCTGCTACAACTCGCCTATGGGCTGCTGCTCAGATGGCAAGACACCCTCCCTGGACGCAGAGGGCTCTAACTGTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013191:ENSBTAT00000017563:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.938 A=NA C2=0.766
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139015=SEA=PU(0.9=2.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCTGAGTGGTGACTTGGAG
R:
AGGACAGTTAGAGCCCTCTGC
Band lengths:
180-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development