BtaINT0015950 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013191 | AGRN
Description
agrin [Source:HGNC Symbol;Acc:HGNC:329]
Coordinates
chr16:52681229-52681950:-
Coord C1 exon
chr16:52681813-52681950
Coord A exon
chr16:52681357-52681812
Coord C2 exon
chr16:52681229-52681356
Length
456 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CACTGGCCCCTCCTCTGCAGCCA
3' ss Score
7.45
Exon sequences
Seq C1 exon
GACTTGAGTCCCCGGAAAGAGACAGTGCTGGGACCCCTGGGCTACCCATGGAAAGGGCTTCCTGCTACAACTCGCCTATGGGCTGCTGCTCAGATGGCAAGACACCCTCCCTGGACGCAGAGGGCTCTAACTGTCCTG
Seq A exon
GTGAGTAGGGGTCCGGGGGCCAGGGTGGAGTGTGAGGCGTGGCCTAGCCATGGCTAGAGACGCCATCTCTCCTCCCAGGCCACAGGCCTGCCCAGCAGGTGGGCACCCAGGGTTTGTGGTCTTCTGATTTTATTAATAGCACACATGTGCCAGTGGTCCTGGGGATCCAGCACAAGCACATATGTGTGTGTTCTCGGCCCCTGCACACATGTGGGTGCCCAGGACCCCATGGCTAACGTGTTTTTCCTGTTGCAAGCCGGCCTGGGGCACTGCTCCAAGGAGTCTGCCTGGTAACCAAAGCCAGCCCTGCCCTGGGGTCCCCACTAACCTCATGACCATCTGACTAACCGCCACCTGCCCTGCACCCTGCGTGGCTTGCTGCTGGGGCCTATGCCCATGGCTGGTTCAGAAGCCAGGCAGGTGCCAGGCAGGACCTCACTGGCCCCTCCTCTGCAG
Seq C2 exon
CCACCAAGGTGTTCCAGGGTGTGCTGGAGCTTGAGGGGGTCGAGGGGCAAGAACTGTTCTACACGCCGGAGATGGCAGACCCCAAGTCTGAGCTGTTTGGGGAGACTGCCAGGAGCATTGAGAGCGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013191:ENSBTAT00000017563:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.766 A=NA C2=0.233
Domain overlap (PFAM):
C1:
PF0139015=SEA=PU(0.9=2.1)
A:
NA
C2:
PF0139015=SEA=FE(37.5=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:
TTGAGTCCCCGGAAAGAGACA
R:
GCGCTCTCAATGCTCCTGG
Band lengths:
262-718
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development