GgaINT0028832 @ galGal4
Intron Retention
Gene
ENSGALG00000006725 | ACAN
Description
aggrecan core protein precursor [Source:RefSeq peptide;Acc:NP_990286]
Coordinates
chr10:12540336-12541608:-
Coord C1 exon
chr10:12541426-12541608
Coord A exon
chr10:12540619-12541425
Coord C2 exon
chr10:12540336-12540618
Length
807 bp
Sequences
Splice sites
5' ss Seq
ACCGTACGT
5' ss Score
8.98
3' ss Seq
GATTCCATTTCACCCCACAGCCT
3' ss Score
6.9
Exon sequences
Seq C1 exon
TTGCCTGTGGGGACCCACCTGTAGTGGAGAACGCGCGGACCTTTGGCCGGAAGAAGGACCGCTATGAGATCAACTCCCTGGTGCGGTACCAGTGTGACCACGGCTACATCCAGCGCCACGTGCCCACCATCCGCTGCCAACCCAACGGGCACTGGGAGGAACCGCGGATATCCTGCACAAACC
Seq A exon
GTACGTCTCAGCCATCCCGATCCCAATAATCCACACCTGTGGGGTGGTGGAGAGGGATGCCCTTGGCCAATATTTTCCTCCCAGCTCCCCTCTGGGGATGTGGGTATTCAAGGTGCTGGATCCATGCAGCTGGGAGGAATGGGAATCTAATTAATCATAGGATCACAGAATGGCTTGAGTTGGAAGGGACCTTAAAGATCACTGAGCTCCAACCTCCTGCTGTGGGCTGGTTGTCCCCCACCGCATCAGGCTGCTCAGGGCCCCATCCAACCTGGACTTGAGCACCTCCAGGTGCATTGGGTGGCACTGGGTGTAGGGCAGTGCTGAGCCATGGGGAGATGCCCTTCTGGAAGCTTTCCCAAGGTAGGGCTGTGGGATGGAGCAAAATAGCTTAATAAGAGCCAAGGCTACTTAAAGAAAGGAATCAAAAAGGAGCAGCTCCTGCAGCTGGTGAGTAGCAGAGGACGGGACTGTGGATCCGTGCCGATGGGACAGGGCTGGCCCCAGGGATGGGGCCGGGTTCCTGGCCCTGCTCGAGGCATTCCAGCCCATCCCCAGGCTGCCTACACCCCGCTCCCATCCCTGCTCGGAGCTTCCCAACAATGACATCCAGCTCAGCCAAATCACATCCATCAAACGCCGGCCGGCTCCTGGCCAGCTCCGCTCCAGCCCGGTCCCAGAGCTGGGGAAAGCAGGCGGGAGGGACGGAGGAGAGCACAATGCTGCACTCCTACTGCTGCGTTTTCCCTGCCTTCCTTCCTCCCCCGTTTCTCCTCGTCCCACTGACGATTCCATTTCACCCCACAG
Seq C2 exon
CCTCCAGCTACCAACGCCGGCTATACAAGAGGAGCCCCCGGAGCCGGTTGAGACCCGGTGTCGTGCACAGACCCACCCATTAGAGCGGGGCGAGGGGTGAGCAGAGAGAGAAAAGAGAGATTTTTACGGAGCACTTCTATTAACAGAGTCAATTTCTTCTTCTTGTTGTTGCTTTTTTGTCATATAAGGAAAAAAAAAAAAAAGAATTATATTACAGACAAACCCACCTTTGTGTATACATATATAAAAATAATAATAATAATAATGTTTTCCAAGCACCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006725:ENSGALT00000010881:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.593
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.9)
A:
NA
C2:
NO
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:
GATCAACTCCCTGGTGCGGTA
R:
ACACAAAGGTGGGTTTGTCTGT
Band lengths:
351-1158
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]