DreINT0048870 @ danRer10
Intron Retention
Gene
ENSDARG00000026165 | col11a1a
Description
collagen, type XI, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-070209-167]
Coordinates
chr24:28739174-28739353:-
Coord C1 exon
chr24:28739300-28739353
Coord A exon
chr24:28739219-28739299
Coord C2 exon
chr24:28739174-28739218
Length
81 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTA
5' ss Score
7.52
3' ss Seq
TCTCTTTCATTATATCACAGGGA
3' ss Score
8.18
Exon sequences
Seq C1 exon
GGCCCCCGTGGTGCACGAGGTGCAAGAGGCCCAACAGGAAAGCCAGGCCCGAAG
Seq A exon
GTACTACTCCTGAAGACTGTGTTTGAGTCAGTCACTTCTCGTTGCACAGTCCTTATGCTTCTCTCTTTCATTATATCACAG
Seq C2 exon
GGAACAGCAGGCAACGACGGTCCACCTGGCCCACCCGGTGAGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026165:ENSDART00000003503:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGAGGTGCAAGAGGCC
R:
GCCAGGTGGACCGTCGTT
Band lengths:
71-152
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]