DreINT0108119 @ danRer10
Intron Retention
Gene
ENSDARG00000028900 | odf2a
Description
outer dense fiber of sperm tails 2a [Source:ZFIN;Acc:ZDB-GENE-091117-46]
Coordinates
chr21:13048858-13049637:+
Coord C1 exon
chr21:13048858-13048983
Coord A exon
chr21:13048984-13049058
Coord C2 exon
chr21:13049059-13049637
Length
75 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGT
5' ss Score
7.7
3' ss Seq
ACTTGTGAACTTTCTTACAGGCC
3' ss Score
9.39
Exon sequences
Seq C1 exon
GTTACCCAGACCAGAGAGCGAGCAGCTTCTAAAGAGCGCGTTACGCAGTCCAAGATTGTCGATTTGGAAGCTCAACTGAGCAGAACATCAACTGAGCTGAACCAGTTACGACGAGCCAAAGATGAG
Seq A exon
GTCAGTGAAATCTCCCCAAATCTGAATTTCAGTCAAATATTTTTGTCAAAAATTCACTTGTGAACTTTCTTACAG
Seq C2 exon
GCCGAACGGAGATACCAGAGTCGTTTACAAGATGTCAAGGACAGACTAGAGCAGTCCGACAGCACAAACCGAAGCCTGCAGAATTATGTCCAGTTCCTAAAATCTTCTTACGTCAATGTGTTTGGAGACCCTGCTCTCACTGGCTCCTCATTCCGCACACCTTCGCCTATCTGAAACCACTTTCAGGTGTCTGTTAAGACTTCTTTTACATGAACTGTATTAGTCGACAACTGATGACCTCTGTAAGTTTACTGTGTTTGTGCTTTACTCCGTAAAGGAATAGTTCACTCAAATATGAGAATTTGCTATTAATTTACTTACCCTCAGACCATCCGAGATGTAGGTGATTTTTTTTGTCAAGACTTTAAGCTGAAAAATTAATGCCACCATCACTTTAGTAATCATATTATGATACATATTTGTTTTGTCTGTATTTTTTTGTTTTGTTTACTCTTAGAGTTCAGAGATTGTTTAATTTCCATTGAAGGAGCACCGATTGAGCTGAAAATCTTTCCGGATCTGTTGAAGAAAAACAGTCACCTACATTTCAGATTCCCAATGGATGAGTAAAGGCATTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028900:ENSDART00000081426:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.738 A=NA C2=0.561
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:
CTGAACCAGTTACGACGAGCC
R:
TGAGAGCAGGGTCTCCAAACA
Band lengths:
169-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]