BtaINT0015960 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013191 | AGRN
Description
agrin [Source:HGNC Symbol;Acc:HGNC:329]
Coordinates
chr16:52678220-52678583:-
Coord C1 exon
chr16:52678487-52678583
Coord A exon
chr16:52678385-52678486
Coord C2 exon
chr16:52678220-52678384
Length
102 bp
Sequences
Splice sites
5' ss Seq
GGGGTCAGT
5' ss Score
3.99
3' ss Seq
CTGCCCTCCCGTGGCCCCAGGGA
3' ss Score
8.56
Exon sequences
Seq C1 exon
TCTCAGAGCCGGAGGACAACCAGCCGTTCCTGGCTGATTTCAGCAGCTTCTCCTACCTGGAACTGAAAGGCCTGCACACCTTTGAGCGGGACCTGGG
Seq A exon
GTCAGTGGGCAGACGGGTGGAAGAGGGGAAGCACCCCCCAGCCCCCATCCAGCTGTGAAGTGAGGGGCATCAGGTCACCCGCCTGCCCTCCCGTGGCCCCAG
Seq C2 exon
GGAGAAGATGGCACTGGAGGTGGTGTTCCTGGCTCGGAGCCCCAGCGGCCTGCTCCTCTATAATGGACAGAAGACAGATGGCAAGGGCGACTTTGTGTCCCTGGCGCTGCACAATGGCCTCCTGGAGTTCCGCTACGATCTGGGCAAGGGGGCAGCGGTCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013191:ENSBTAT00000017563:28
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:
PF0005418=Laminin_G_1=PU(34.8=82.1)
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:
CAGCCGTTCCTGGCTGATTTC
R:
CTGATGACCGCTGCCCCC
Band lengths:
242-344
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development