DreEX0023148 @ danRer10
Exon Skipping
Gene
ENSDARG00000020007 | col1a2
Description
collagen, type I, alpha 2 [Source:ZFIN;Acc:ZDB-GENE-030131-8415]
Coordinates
chr19:41411260-41412556:+
Coord C1 exon
chr19:41411260-41411421
Coord A exon
chr19:41411512-41411619
Coord C2 exon
chr19:41412449-41412556
Length
108 bp
Sequences
Splice sites
3' ss Seq
TTATTTTTTTTCAAAAATAGGGA
3' ss Score
8.07
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
Exon sequences
Seq C1 exon
GGTATTGTTGGACCTGCTGGTCTCACTGGTCCCGCTGGAAAGGATGGCCCACGTGGTCCTCGTGGTGATGTTGGCCCTGCTGGTCCCCCAGGAGAGAATGGAATGATTGGACCTCTTGGTCTGGCTGGTGAGAAGGGACCCCCTGGAGAGGCTGGTGCACCT
Seq A exon
GGAGCACCTGGACCTGCTGGGCCTCAGGGTCAGCTGGGATCACAGGGATTCAATGGTCTTCCTGGCTCCAGAGGTGACCGTGGTCTTCCTGGTATCCCCGGATCAGTT
Seq C2 exon
GGCCCTGCTGGACCTCGTGGTGAGAAGGGTGTTGCTGGAGAAAAAGGAGACAGGGGTATGAAGGGACTTCGTGGACATCCTGGTCTGCAGGGAATGCCCGGACCTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020007_MULTIEX1-17/24=16-22
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(61.6=100),PF0139113=Collagen=PU(28.3=31.5)
A:
PF0139113=Collagen=PD(11.6=27.8),PF0139113=Collagen=FE(58.3=100),PF0139113=Collagen=PU(3.0=5.6)
C2:
PF0139113=Collagen=PD(15.8=33.3),PF0139113=Collagen=FE(49.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTATTGTTGGACCTGCTGG
R:
AGGATGTCCACGAAGTCCCTT
Band lengths:
243-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]