DreINT0049563 @ danRer10
Intron Retention
Gene
ENSDARG00000069093 | col2a1a
Description
collagen, type II, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-980526-192]
Coordinates
chr8:21168491-21168640:+
Coord C1 exon
chr8:21168491-21168507
Coord A exon
chr8:21168508-21168607
Coord C2 exon
chr8:21168608-21168640
Length
100 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CTTTATTTTAATCTCCACAGGGA
3' ss Score
9.98
Exon sequences
Seq C1 exon
GGTCACTTGGTGCAAAG
Seq A exon
GTGAGGCCTTGACTTGTCTGTATTTTAAAAAAGTCATACTATACAAATGCTGAATAGAATGAATTGTATTTTAAATTATTCTTTATTTTAATCTCCACAG
Seq C2 exon
GGACAGAAAGGAGAACCAGGCGATATTACAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069093:ENSDART00000100234:3
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:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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]