GgaINT0028831 @ galGal4
Intron Retention
Gene
ENSGALG00000006725 | ACAN
Description
aggrecan core protein precursor [Source:RefSeq peptide;Acc:NP_990286]
Coordinates
chr10:12541426-12542621:-
Coord C1 exon
chr10:12542477-12542621
Coord A exon
chr10:12541609-12542476
Coord C2 exon
chr10:12541426-12541608
Length
868 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCTTTGCCCATCTCCCGCAGTTG
3' ss Score
8.91
Exon sequences
Seq C1 exon
CAATTTGAGAACTGGCGGCCCAACCAACCTGACAACTTCTTCTCCGCGGGCGAGGACTGCGTTGTGATGATCTGGCATGAGCAAGGCGAATGGAACGACGTCCCCTGCAACTATCACCTGCCTTTCACGTGCAAGAAGGGAACAG
Seq A exon
GTGAGCCCCTGCTGTGCACCAGCAAGATGGGGACGATTCCATCAGTGGCTGTGGGGTTGGGACATGAGGGGAGTGAGCCCTTGTTCTGCCACTGAGCTCTTTGGAAGTACCAGCCCCATGTTCAGCCAGGAAAGTTCATGCTGTAAGACTGCCTCCCCCCGAAGTTTGTGTGAACTTAGGTTTCTTTAAACTTCTTTAGCAACAGTGCCTTTTTTATAGTATCTCCACCTATTCCCCTCCGAAGGGAACACTCTCCCCATTCTCAGCTTATTCTCTAGCCCTGGGTCTGACTGATGGATGTTATAAAAGCTTGAGGGGTGGCACCTGCCCACGTGGGTCCCAGAAACAATCTGGATCAGAAATATCATTCCAGCAGGGGAATAACGAGGGAGGGCATCACTCCCACCACATCTCAGGCAAAGTGGTTGCATCTTTCCACCCCATCAGTGGCCTCACCTGAAGGACAGAAGGAGCGGCCATCACCCACCTACAGACATAGAACCATTATGTTTAGAAAAGACCACTAATATCACCGAATCCAGCCATCAACCCATCCCCACTGTGCCCTCAGTGCCACATCCCCATGGTTCCTGAACACCTCCAGGGATGGTGACTCCACCACCTCCCTGGGCAGCTGTGACACCGCATCACCACTGCATTCTTCTTTCTGAGAAGTCTTTCCTAATATCCAACCTGAACCTCCCCTGGTGCAAGGCAGTTGCAAGTTGAATGCCTCCCCTTGAGGCCATTCCCTCTTATCCCCGTGGGGCAGCACAGGAGAAGCAGCAATGGGGCTGGCGGGTTGGGAGCTGCCTGCCCAGCTAGTGGGGGTTCTCCATCTCTTATTGTCTTTGCCCATCTCCCGCAG
Seq C2 exon
TTGCCTGTGGGGACCCACCTGTAGTGGAGAACGCGCGGACCTTTGGCCGGAAGAAGGACCGCTATGAGATCAACTCCCTGGTGCGGTACCAGTGTGACCACGGCTACATCCAGCGCCACGTGCCCACCATCCGCTGCCAACCCAACGGGCACTGGGAGGAACCGCGGATATCCTGCACAAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006725:ENSGALT00000010881:15
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=0.016
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=PD(42.5=91.8)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.9)
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:
AATTTGAGAACTGGCGGCCC
R:
GTTTGTGCAGGATATCCGCGG
Band lengths:
326-1194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]