GgaINT0003979 @ galGal3
Intron Retention
Gene
ENSGALG00000013587 | COL2A1
Description
NA
Coordinates
chrUn_random:31478772-31480014:-
Coord C1 exon
chrUn_random:31479928-31480014
Coord A exon
chrUn_random:31478826-31479927
Coord C2 exon
chrUn_random:31478772-31478825
Length
1102 bp
Sequences
Splice sites
5' ss Seq
GAGGAGGAA
5' ss Score
-9.56
3' ss Seq
CTCCATCCTTTCTTTTCCAGGGT
3' ss Score
10.96
Exon sequences
Seq C1 exon
CTGTGCGCCTCAAAGGGGCCCTTTGTGCCACGATCCCAAAAAAGTCCCCTTTTCATCGCCACCTCCGATGGAGGAAGAGGAGGAGAG
Seq A exon
GAGGAAGAGGCCGCGTTGGGGGCAGAGCGACGGCCGCTGTTCTTTGACATCATCCCACAAAAATGCCATACGGGGACCCCCCCCACACACCATACGGGGTTGGGGCAGAAGGGCTTTGGGGTTGGGTGGGGGTGGGGGGTGGGCAGTGGGGGCCGTGAGAAAAAAGGATATGAAGGAACAGTGGGGGGAATATGGGGGGGTTTTATAGAGGTTTTGGTGCGTTCGTGGCGCTGGGTTGGCTGTGGGGTTGGACCCCGACCCAATGGGGTTGGGGGAGACGGGGAGGGATGTGGGGTCCGGATGGGATGCCGGTAATTGGGGTATAATACAGCAATTGAGTTTTATGGGGGATGATTCTGACAATTGGGGTTTGGGGGGGCATAATGCAACAATTGGGATTTGGAGGATTATTCCAACAATGGGGATTAGAGAGAGGATTCCAAAGGTTGGGATTTGGGGGATGATGCAGCAATGGGGATTTTGGAGGGACGATGACAGAAATTGGGGTTTTGGGGGGTGATGCATCAATTGGGATATTTTGAGGTTAATTCCAACGATTGGGATTTTGAGGTTAATTCCAACGATTGGGATTTGGGGGATCGTGCGGCAGTTGGGTTTGGGGGGGCGGTTCCCGCAGGAGGGATGGATGCTTCCGATCGCCCCACCCAGAAACAGAAGTTGGTGCAGGATTGACTCTGTTTGGACCCCAAAACAAAACACGAGGATCCCAGCGGGGTGAAACTGCAGGAAATGGGCTGTCTGGGGGCAAACTCACCCCATTGGGGTCTGCGCATGGCATGCGCCCTTCGTGCCGTTAGGGAGCTTTTGGGGCACCCAATAACTTCGGTGATCACCCAGCTTTTGGGATCACCCAGCTTTTGGGATCACCCCATGTTGGGGATCACTCCATTCTTGGGGTCACCCCATTCTAAGAGCACCCCATTCTTGGGGTCACCCCAGCATCTTGGGAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTGCCTCCCCTCTCCATCCTTTCTTTTCCAG
Seq C2 exon
GGTGAATCCGGCCCTCCTGGTCCATCTGGTGCTGCCGGTGCCCGTGGTGCCCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013587:ENSGALT00000035835:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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]