GgaINT0133395 @ galGal4
Intron Retention
Gene
ENSGALG00000002041 | AGRN
Description
agrin [Source:RefSeq peptide;Acc:NP_990858]
Coordinates
chr21:2718991-2720363:-
Coord C1 exon
chr21:2720004-2720363
Coord A exon
chr21:2719184-2720003
Coord C2 exon
chr21:2718991-2719183
Length
820 bp
Sequences
Splice sites
5' ss Seq
AACGTAGGT
5' ss Score
7.3
3' ss Seq
TCCCTCCCTGCCTCTTGCAGCCA
3' ss Score
10.94
Exon sequences
Seq C1 exon
ACTGGATCCCCAGGATCTTCACCACCACCATCACCACCACCACGGCCACCACCATGGCACCTGCCACCACACGGAGGCACACCACAGCCTCTGCTGCCACCACTGCCCACATCCTGCGCCAGGACACCGTGGGTCACCCCAGTGCCAAGCTGGCAGCACCTGCAAGCACCAGGAGGCCTACATCCACCCTGCCTACCACCGCCCGGCGCAAACCCACTCGCCAGCCCCCCAGCACCACCAAGAAGCCCTCACGACCCTGCGACTCACACCCCTGCCTGCATGGTGGCACCTGTGAGGACGATGGCAAGGAGTTCACCTGCAGCTGCCCAGCAGGCAAAGGAGGAGCTGTGTGTGAGAAAC
Seq A exon
GTAGGTGGCCTCTGGTTTGCCTAGGGGCAATGGAGCTCGTGGCCATTAGATGGCAAGGGACAAGGGAGTTAGGACCTTTAAAGATCCCTTTCGACCCTTGAAATGGTTCTGTGATTCTGTGAAAACTGGGGACAGCAAAGTCATGGGAAGGGCATCTCTTAGGGCGTTTGATTCCAAACTCATGTTCCAACTAAGGATGCTGGGAGGATACAAGTGAGAAAGTGTTGCTCTCCAGTCGTCCATTCTGTTGCATGCTCTCCCCAAGCACTGTGATGTGCACTGGCTGAATGGGGGTAGGGAGCAAACCCATCCCTGTACTGAATGCTAGTGCTGCAAGGGTCGATGTAACCGCTGTACCCCAGCCAGGAGCAGGCTGTGCAAGCACTGTAAGTAGTAAGAGGCGAAGCTGCAGGGGAAGAAGGTGCCAGCAGCAATTTCTTGCTGGCTGTGCTACATCAGTGCCCTGGAGCATGGGGATTGTGAGCTTCTGCTATTTTATCTCATGGCATTGCCTGCGGCTCCTGAAGTTACTGAGTGCAGAGGACCGGTGCTATCTTTTGCTGATGATTCAGGTGCTATTCCCCAGTGCTCAGGGCTGTATAGCAAACAGCCACGTGCCCACCATGCACACCCAGAGCTGCTGTACACACTGTGAGCTCCCACTGTCACAGCAGAGCTCTGGGTGGCTCCTAGTGCTAATTCCTGGAAAGCTGTGTCCCCGAAGCTCTAAGCTGAGACTCTCGAAGCTAATTCTGGATGTGGATGCTGAATCCTGTTCCTTTTAACTGGGCTTGCCCTTCTCCCTCCCTGCCTCTTGCAG
Seq C2 exon
CCATCAGGTACTTCATCCCCAGCTTCGGTGGCAAGTCCTACCTGGCCTTCAAGATGATGAAGGCGTACCACACCGTGCGCATCGCCATGGAGTTCAGGGCCACGGAGCTCAGCGGGCTGCTGCTCTACAACGGGCAGAATCGTGGCAAGGACTTCATCTCCCTGGCGCTGGTGGGCGGCTTCGTGGAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002041:ENSGALT00000003171:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.653 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=26.4)
A:
NA
C2:
PF0005418=Laminin_G_1=PU(25.0=50.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACATCCACCCTGCCTACCA
R:
GGAGATGAAGTCCTTGCCACG
Band lengths:
344-1164
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]