GgaINT0028829 @ galGal4
Intron Retention
Gene
ENSGALG00000006725 | ACAN
Description
aggrecan core protein precursor [Source:RefSeq peptide;Acc:NP_990286]
Coordinates
chr10:12542955-12543414:-
Coord C1 exon
chr10:12543256-12543414
Coord A exon
chr10:12543038-12543255
Coord C2 exon
chr10:12542955-12543037
Length
218 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TCCCTGTTCTGCTTTCCCAGGCC
3' ss Score
9.94
Exon sequences
Seq C1 exon
ACCTGGCAAACTGTGAGGAAGGCTGGATCAAGTTCCAGGGCCACTGCTACAGGCACTTTGAAGAGAGGGAGACGTGGATGGACGCAGAGTCCAGGTGCAGAGAACATCAAGCCCACCTGAGCAGCATCATTACTCCAGAGGAACAAGAATTTGTGAACA
Seq A exon
GTGAGTGTTGGGGGCTGCCTGGGGGACATGAGAACAGGGAGGGGTCCATCCAGTGGTCTCCAAGTTTACGGTGGAGATCTTTGTCCAAAATAATGTAAAAAGCATATGCTAAATGACCACAGGGCTCCAGGTGCAGAAGAGCTGAGCTGGCAAAGTGATGCCTGCGCACAGCATGGTGAGCCAGCACCTATACTTCTATCCCTGTTCTGCTTTCCCAG
Seq C2 exon
GCCATGCACAAGACTATCAGTGGATCGGCCTCAGTGACAGAGCCGTGGAGAATGATTTCCGCTGGTCTGATGGACACTCGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006725:ENSGALT00000010881:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=PU(30.2=59.3)
A:
NA
C2:
PF0005916=Lectin_C=FE(25.5=100)
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:
CCTGGCAAACTGTGAGGAAGG
R:
AGCGAGTGTCCATCAGACCAG
Band lengths:
240-458
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]