DreEX0023057 @ danRer10
Exon Skipping
Gene
ENSDARG00000012405 | col1a1a
Description
collagen, type I, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-030131-9102]
Coordinates
chr3:23105796-23108558:+
Coord C1 exon
chr3:23105796-23105971
Coord A exon
chr3:23106381-23107269
Coord C2 exon
chr3:23108519-23108558
Length
889 bp
Sequences
Splice sites
3' ss Seq
CTCTGTGTTATACCCATTAGGAC
3' ss Score
6.77
5' ss Seq
AATGCCTTC
5' ss Score
-22.28
Exon sequences
Seq C1 exon
TCGCACACCGGTGCATGGGGCAAGACAGTCATTGACTACAAAACAACGAAAACATCCCGTCTGCCTATTATTGACATCGCCCCTATGGACGTTGGTGCACCTAATCAGGAATTTGGCATTGAAGTTGGCCCAGTCTGCTTCTTGTAAAAAAGAAATCTGGACTTGAGATTGTTTGT
Seq A exon
GACCACCGGGTGCCGAATGCCAACGTTCCTCTCAAGTCACACGAGTACATCTAGTAGAGACAGGGGTTCAACTTTGTTTTGATGTTTTATGGCTACCTCAAAAAAGAAACCTGCGATTCCCAGTGTTGACCAACACCAGGTCAGGATTTTACTTGGCAGAAGTATTGTTAAGAGAACAAGTGACAGCTGTAAAGGTGCTATTTCCTCATGAGGTCCTGTTAGCAAGAAATCAAGGAGTTTCACAAAATGTATTGTTCGTCGCTTTTGCTCACAGGGCCTTTGGTGCTAAGGAACCCCAGCATCTTGCTGCCCAGTTGTAACAGATGCTTCCCTTTCTGAAGTGAAGAGCCAGACAGCAGAGCTTTTGTTAAAAAGCAGTACTGTAGCTGTGATGCATGCAGTCTTTTCAAGTGTAGAATAAGCAGGTGGAGTCTGTTTTTATTTTCCAAACGCCTTTTGACACTTTTTGGTTGTTGTCTTTTGGTTTCTTTATAAAATATCCCCCCACAAATGTCGTTCAGTTGCTTCCAGCTATTCCCCCTACTTCCCTCCCATCCTTCTGTAATCTGGATTTGTTTTGTTCTCACCCTGGTTTTTTTTTTTAAGCGTAAAACAGACAATCAAATAGAAAAGTCCTAAAATCATGAGAGAAGCACACCTTAGGGGGGTAAAAACAAGAAGATCTGTACCTATTTTGTATATGTATAATAATTTGAGATGTTTTTAATTATTTTGAATGCTGAAATAAAGCATGTTAAGTGGTCGACCTATGTTTGTCAGAAGTGATCTTGACTCGTCCCTGACTGCCCAATGGACTTGAATGAAGCACAGCTTGCACCTGTTACAGTTGTTTTGACTAAAAGGAAAGATTAAAGAAAATCTCAGAAAT
Seq C2 exon
GAAAAAATAAAGATCTAAACCACCAGAGGGCGAGTAAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012405-'58-57,'58-56,61-57
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0141013=COLFI=PD(21.0=93.9)
A:
NA
C2:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATGGGGCAAGACAGTCATT
R:
ATTTACTCGCCCTCTGGTGGT
Band lengths:
203-1092
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]