GgaINT0090606 @ galGal4
Intron Retention
Gene
ENSGALG00000016195 | COL22A1
Description
collagen, type XXII, alpha 1 precursor [Source:RefSeq peptide;Acc:NP_001132911]
Coordinates
chr2:144182673-144183693:-
Coord C1 exon
chr2:144183658-144183693
Coord A exon
chr2:144182727-144183657
Coord C2 exon
chr2:144182673-144182726
Length
931 bp
Sequences
Splice sites
5' ss Seq
TTGGTACAG
5' ss Score
0.92
3' ss Seq
GTTTGTTCTCTCCCTGCCAGGGT
3' ss Score
9.69
Exon sequences
Seq C1 exon
GGCCCTGTTGGACCCCCAGGAGACAAAGGATCATTG
Seq A exon
GTACAGTATGTCTTTCTCACTACACCCAGATTTTGTGGGGAGGGGGCAAACATGAATTTTGTTACTAACAGTGATTTCATAAAATCATCATTAATTTTTTGGTGCTGTATTTTTCCAAGAGATGGTAGAGTCATATGTTGGCTGGTTAGCCAAATGAGACTTCGGATGTGCATTACCACTACGTGTTTGCTGTAGTGGGTTATGAGAAAAAGAGTTATCCGGACTCCTGTTCTGGTGACAACTTTTCCTCACACCTCAGAACAGTCCCACAGGAGGAAAGAAAAAGTATGTCACGGCACACAATTCAAGGCATGTTGTTATGCCTTATAATCAAAGCCTCAAATGTATAAATATTTTTCAGTATTTTTCTTGCTTAAGGCTTACAGAAAACCCTGCATTTAAGTGTTAACCAAACACACTTATTTCCTTCATGGTTTACAAAGTTGCAGTCTATAGGTGTGAAGCTAATAGCTGTTTATTATAGTTTCACTATATGCTGGTATGCATTTCCAGTGGTATAGCCCAGTCATGGTGTGTACTAGTTTGACACCAAGGAATTGAATGTTCTTTTCTCCTCCACAGTCCCATGATCAGTTGTATTTTCTCTCTGTTCATATACTTGCCTTCTTATAAAGAGTCATTATTACCTTTCCAGTTGAGGTATGTGAGATTTGACTGGAGTGATGCACTTAAAATTCCTGGATGCACAGGAACAACTGATGCTGTGATAGTTCAATGTGGAATTACTTTTTATTTTAATCTCTTTTGAAAGCGTTTAACTGTTAGCATTGTGGGTTGTTGTTGGTGATGTTTGTTTTTTTCTTTTTTTTTTTTTCCCAAGTAATTATTGAGTTGAGTGTTTTTTTCTCTTCAGCTAAGGATAATCTGGCAAGTACTGCTCATGTTTCTGTGTTTGTTCTCTCCCTGCCAG
Seq C2 exon
GGTCCTCGTGGTGTACCTGGTATCCCTGGACCACAGGGGCCTCCTGGCCAGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016195:ENSGALT00000026109:42
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(19.3=100)
A:
NA
C2:
PF0139113=Collagen=FE(29.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
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]