DreINT0108117 @ danRer10
Intron Retention
Gene
ENSDARG00000028900 | odf2a
Description
outer dense fiber of sperm tails 2a [Source:ZFIN;Acc:ZDB-GENE-091117-46]
Coordinates
chr21:13047864-13048329:+
Coord C1 exon
chr21:13047864-13047964
Coord A exon
chr21:13047965-13048166
Coord C2 exon
chr21:13048167-13048329
Length
202 bp
Sequences
Splice sites
5' ss Seq
ACGGTCTGT
5' ss Score
5.11
3' ss Seq
TTTTGATTTGCTCTTTTCAGGAA
3' ss Score
10.19
Exon sequences
Seq C1 exon
GCAGAGCAACAGGGAAGCTTGGCGGAGATGTTGAGGCACAAAAACATGCTGCTACAGGAGGAAAACAAACAGCTTCAGCACAAAATGGAGAGCCTTGAACG
Seq A exon
GTCTGTTGCCTTGTCTTATATCCCTCTGTCATTCATTTTAAAGTATTTTATCTTTTAAAGTAATAATACATCTAAAAGTGAAAATTGAAAGTGAAAAAAGTAGTAGTCTCTATTTTTATTTACTTATTCATTTGAAGTAAAAATTGGTTTCAGATAATGATGGAAGAATTTTCATTTTTGGGTTTTGATTTGCTCTTTTCAG
Seq C2 exon
GAAGCAAGAGGAGGCTAACTCGCAAAATCGAGATCTCATCCAGGTCATTTCAAAACGGGAAGAGACGATTCATAGCAGCCAGGTGCGTCTGGAAGAAAAGTCTCGAGAGTGCAGTATTCTGACCAAACAGCTGGAGGAGGCATTGGATGATGCCCGTCGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028900:ENSDART00000081426:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.824 A=NA C2=0.527
Domain overlap (PFAM):
C1:
NO
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:
CAGAGCAACAGGGAAGCTTGG
R:
GTCGACGGGCATCATCCAATG
Band lengths:
261-463
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]