DreINT0108113 @ danRer10
Intron Retention
Gene
ENSDARG00000028900 | odf2a
Description
outer dense fiber of sperm tails 2a [Source:ZFIN;Acc:ZDB-GENE-091117-46]
Coordinates
chr21:13042467-13043167:+
Coord C1 exon
chr21:13042467-13042576
Coord A exon
chr21:13042577-13043031
Coord C2 exon
chr21:13043032-13043167
Length
455 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
ATGTTTTGGTATGCTTCCAGCCG
3' ss Score
5.53
Exon sequences
Seq C1 exon
GAAAAACAATTGGCAGAGGCTGTGACAGCTGCAGAAAACTGGAGCAGTCGCCACGCAAAAGAGATGAAGGACAAAGGACAGCTTGAGGTGGAGATCGCACTGTTGAACAG
Seq A exon
GTCAGCAGAGATCTGTGTCCCTTGTATAATTATGTAAATAATAATTTTTCACCTGGTATTCAAACTCTTCTTTTCAAACTTTTTTTGTCCACTTTTAATATTTTTTCTGAATGTGTTTCTGCTCTGATAGCAAAACTTTGCTGAATGGTGTAGGTGTATGTTAGAATTAAGACTTTTTACAGCCCTTCGAACCAAACTTTAAATCTTATCTAACTGCCACACAGTTTAAGAATTGGGTCAGTAGACAAAGAGTCGATGGCCTTTAGTTGGTAATCTAATGCGTTTGAGTACATTCGAGATGCATTAGAGAAAGCTCAAAACATCAAAATGATACCTTTTACATTGATGTTTAACATTGTCCACTTGTGATTGGATTGAAAAAAATGTATTATCATTCCAAATTTAAAGAAGACCTCAGAATAAAAACTGCAGACTATGTTTTGGTATGCTTCCAG
Seq C2 exon
CCGCATTACAGACCTGACTGAACATTTGCATGGGCAGGAAGAGAAATCCCGGATTGAGAGAGACGGACTCTTGGATCGCCTTCATGAGCTCAATACAGAGAGCACTACTGTACGCCTGGAGAACCAGAGCCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028900:ENSDART00000081426:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.351 A=NA C2=0.598
Domain overlap (PFAM):
C1:
PF115593=ADIP=PD(2.2=5.4),PF0031217=Ribosomal_S15=PU(52.8=75.7)
A:
NA
C2:
PF0031217=Ribosomal_S15=PD(45.3=52.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATTGGCAGAGGCTGTGACA
R:
TGGTTCTCCAGGCGTACAGTA
Band lengths:
230-685
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]