DreINT0039087 @ danRer10
Intron Retention
Gene
ENSDARG00000021004 | c5
Description
complement component 5 [Source:ZFIN;Acc:ZDB-GENE-120510-2]
Coordinates
chr5:62793844-62794144:-
Coord C1 exon
chr5:62794023-62794144
Coord A exon
chr5:62793929-62794022
Coord C2 exon
chr5:62793844-62793928
Length
94 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
TTCTCTTTTATGCAATGCAGCTA
3' ss Score
6.03
Exon sequences
Seq C1 exon
CAAGAAAACGAGAAGAGATTACGAGAAGGAAAAATATTGTCGACTTGCCTTCGAGCAGTGCTGTGTATTTGCTAAGGATCTTCGTAAAGAGAATGCAGAAAATATCATTCTAAGCCGGGCAG
Seq A exon
GTATGGATGTTTCTCACATGGCATAATATTGACTTGGATTATTAATGTGTTCTTTTAAAAAGAAAGATCAAACATTCTCTTTTATGCAATGCAG
Seq C2 exon
CTATCGACTTTCTGATGGATGCGCCGCTGTCTCAGGTTAGGAGCTACTTCCCTGAGAGCTGGTTATGGGAGGAACACCTCAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021004:ENSDART00000097325:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0182113=ANATO=PD(45.7=50.0)
A:
NA
C2:
PF0020717=A2M=PU(10.2=31.0)
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:
ATATTGTCGACTTGCCTTCGAGC
R:
GGTGTTCCTCCCATAACCAGC
Band lengths:
167-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]