DreINT0038950 @ danRer10
Intron Retention
Gene
ENSDARG00000012694 | c3a.1
Description
complement component c3a, duplicate 1 [Source:ZFIN;Acc:ZDB-GENE-990415-35]
Coordinates
chr1:55500692-55500948:-
Coord C1 exon
chr1:55500866-55500948
Coord A exon
chr1:55500780-55500865
Coord C2 exon
chr1:55500692-55500779
Length
86 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
TTGGTTGGATTTGGTTTCAGTGC
3' ss Score
5.44
Exon sequences
Seq C1 exon
TCTGGGCATCTGGAAGGTCGTCACACGATTCGCAAACACTCCCCAGAAGACGTTTACTGCAGAGTTTGAGGTCAAAGAATACG
Seq A exon
GTGAGATGAGTGTCAACACCATGTTGTGTAATAGTCTGATAAGAGTGTGTTTGCTTATTTGTGTGTTTGGTTGGATTTGGTTTCAG
Seq C2 exon
TGCTTCCAACATTTGAGGTGAAATTACAACCCAGTAAATTATTCTACTATGTGGGCGATGAAAGTCTGACAGTCGACATCGAAGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012694:ENSDART00000052688:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0183514=A2M_N=PD(25.3=82.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
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:
CATCTGGAAGGTCGTCACACG
R:
TCGATGTCGACTGTCAGACTT
Band lengths:
159-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]