GgaINT0028828 @ galGal4
Intron Retention
Gene
ENSGALG00000006725 | ACAN
Description
aggrecan core protein precursor [Source:RefSeq peptide;Acc:NP_990286]
Coordinates
chr10:12543256-12545657:-
Coord C1 exon
chr10:12545544-12545657
Coord A exon
chr10:12543415-12545543
Coord C2 exon
chr10:12543256-12543414
Length
2129 bp
Sequences
Splice sites
5' ss Seq
TCGGTACGG
5' ss Score
8.77
3' ss Seq
CCTTCCTTTGTGTGTTTCAGACC
3' ss Score
11.86
Exon sequences
Seq C1 exon
ACACTGATGAGTGCCACTCAAGCCCCTGTCTGAATGGAGCTACCTGCGTTGATGGCATCGACTCTTTCAAATGCTTATGCCTTCCCAGCTACGGAGGGGACCTGTGTGAGATCG
Seq A exon
GTACGGCCTACTCGGCTTCAGCTAATCTTACTAACAGCCTCATTACCTCCTTCCAGCCCTATCCCCAGAAAGCTGAGCCCAGGTGCTCCCATCAGCCCTGCCCTCATCTCGTTAGCTAACCTCTAACAGCAGCTTCCAACACAGTAGGGAAAAGCTTTGAGCCTTTTGCTTTCATATTCTGATTCATTCCTTCATCACAGCATTGTGTTCTCTGAGATTCCCAAGCAGGGACCTCTGGCGTCCTCTTCAGCTTTCTTGTTTGTGTCCAGCTTCTCTGGTGAAGCTGCACGCAGGCTGTGATGGTGTTGATCGCTGCATCTTTGGATCAAGGGTCTTTCTGTTCATCTGTGACAGTAGGGAAACATCTGAGCACATCTCCACCCCAGGCAAACTTTCTCTGCTAGACTGGAATTTCACGGAAGGGTGCTTCAACTGAGCCATGTAAAAATGATTGTGTTTCGCTCTGTGAAGAAGCCTCCTTCACTCCAGGAATCTCCACCGATGTGACACAGCATGACATTTCTGTCATCTCTTCAACGTGGCTTCCTGTGGTAAAGCCAGCAGGGAATGTGTATCTGAGAAAACATGAAGTGACCTACTTTTACTTCAAAATGAGGCGCACTCTGACCTGCACTAATACTTCTTTTTGTTTCTGCAAGGGGAAAAAAAGCATTTTTTTGTTCTTAAAACTGATGAAAGGCCAAACTTCTGTCAGCTGAACTGAGAGGAAGGTCCCCTGCCTTGCTCAAACAAGAGGAATAAGTTGCATTTCTTACTCACCTTGACACAAGTCACGCTAATGTGCATTGGGTTTTTCTTCATCTTTCTCTGCATCTCTCTTTCTGCTTTAGGTATGAGCGTACAGAATAGACCGTAAAAAAGACTCAGGATTTTTGCACCATTAGGGCAGGAATGGTGCCGTCTTTATGTCTCTTTGTCAACGCAACTTAATCAGCCTCTGATTTACCCATCCCTGCTGCCTTCTGTTCTGCCAGAAGACTCCTACCCTGCAGCTGCTCATGACCTTGTTTGGTCCAAGCAAGACTTAATTTTCTCTTTTCTCTCTTCTATGATTTATGGGTTCATAATGCCTGCATCCCATGGTCTGGGTGATACAAGGAGAAAGAAAGGACCCAAATTCAGTGGTGAATGTAATTCTTTATTACTGCTGTGAGGCAGATCTTCCTTTCCCTAATATCTATCAGTCTTCAGGACACTGCAGGAGTCACGACGACAGTGTCCCTACCAGGACACGAGGTTTTTGATGGTATTTACCAGTGTGATTGCCTAGAGCTTCAACTACTTCCAGATATTCCATTTGATCTGTTAGAAAGCACAGAATACATCTAAATGCCTCACCCAGCTACCAGCCCTCCCAACACCTGTGGAGCATCTGCAGTCTCCAGTTGGAAGAAGACCAGAAGGGCAGGTCAGAGGGAATTTGTGTTACTGAAGGCAACAGTGCTTTGACCTACCAAGATTAACAACGGAAGAAAGAAACTGAGCACAGAAAACCCTACTGTAAAGGGAGGGAGGCATGAGGTCTGATGGAATCTCACCCCAAGAGCAGCGAGTTCCTGCTCACATCTCTTTGTTCCCATCTTGGTAGGGTTGCTTTTCTTCCAAACCCAGAACCACAGCAACGAATGTGACCGCTCATCCTGGGCTCTCACCCCTCGATTCCTTTTTGATGTACGAATGTCGATTCTGGCATGGAGGTTCAGGTTTCGAAGACACTTTCCAAAGCAACAAAACTCTGCAGGAGAAAAAAAAAAAAAAAAAAGAGGGTTGTTGCTTTGGTCAGATCCTCAAAAATAGTCGAGGAAAACAAATGGGGATGGAATTGCTCCAGAATAACTCTATGTCATTTGAGTTTTCCAATAGCACTCGTCACTTTATGGCAAGCATGGGATCTTCAGCATAGGCTTCCCTCTCTTCTGCGTTTGTCTTGGGTGCCTTCTGACCATTTCCCCTGGGATGCCATGCAGATAACACTGTCAGGTTTTGCTTTTTAGTGGAGGTGACCATGTGTTGTCCTGTGCCACAGGTGTGTGAGCTGCCAAGAGGTGAGTTGGAAAGCTGTCAGACATTGCACCAACTCCTTTTCAACCTTCCTTTGTGTGTTTCAG
Seq C2 exon
ACCTGGCAAACTGTGAGGAAGGCTGGATCAAGTTCCAGGGCCACTGCTACAGGCACTTTGAAGAGAGGGAGACGTGGATGGACGCAGAGTCCAGGTGCAGAGAACATCAAGCCCACCTGAGCAGCATCATTACTCCAGAGGAACAAGAATTTGTGAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006725:ENSGALT00000010881:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.130
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=79.5)
A:
NA
C2:
PF0005916=Lectin_C=PU(30.2=59.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]