DreINT0007299 @ danRer10
Intron Retention
Gene
ENSDARG00000101258 | COL27A1 (2 of 2)
Description
collagen, type XXVII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22986]
Coordinates
chr16:51998845-51999003:+
Coord C1 exon
chr16:51998845-51998862
Coord A exon
chr16:51998863-51998967
Coord C2 exon
chr16:51998968-51999003
Length
105 bp
Sequences
Splice sites
5' ss Seq
CGAGTGAGT
5' ss Score
8.49
3' ss Seq
AATTTATTTGTGTTATTCAGGGT
3' ss Score
7.4
Exon sequences
Seq C1 exon
GGTGTTCAGGGTCCTCGA
Seq A exon
GTGAGTCTTTACGGTCACAGCATTACAGATCATCCATTCATTATTATATTATTTTTACTTTAAGGTTACTTGTGTGTTTCTGACTAATTTATTTGTGTTATTCAG
Seq C2 exon
GGTGCTCCTGGACCACGTGGACCTCCTGGACCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101258:ENSDART00000161330:51
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(8.8=100)
A:
NA
C2:
PF0139113=Collagen=FE(19.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
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]