RnoINT0141942 @ rn6
Intron Retention
Gene
ENSRNOG00000012697 | Spaca9
Description
sperm acrosome associated 9 [Source:RGD Symbol;Acc:727909]
Coordinates
chr3:7270685-7271589:-
Coord C1 exon
chr3:7271387-7271589
Coord A exon
chr3:7270833-7271386
Coord C2 exon
chr3:7270685-7270832
Length
554 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
GCCTGCTCACTGTCCTGCAGGTA
3' ss Score
10.31
Exon sequences
Seq C1 exon
GTGCAGAGCTACATGGAACATTACTGCAATAACTCCACCGACCGGCGGATTCTGCTCATGTTCATGGACATCTGCTCGGAGCTCAACAAACTGTGCCAGCACTTTGAGGCCTTGCACTCCGGCACCCCTGTCACCAACAGCCTTCTCGAGAAATGCAAAACCCTGGTTAGCCAGAGCAATGACTTGAGCATCCTCAGAGCAAA
Seq A exon
GTAAGTCCGTCACAGGGCAGAGTCTCTGCTGAGAGGACAGGGACCTATGAGCCCGCTCTACCTCGCTGACATAGGTTCATACAAGTCTTAGGCCCCAATTACCTACTGGAGTCACTGACTTAATCAAACTGACCTAAACTGGGTCACAGACACAGGAGGAATCAAAAATGTCTCCTAGGACTTAGAACTCTAGACTAGGGAGAAGTTGACTACAGAAGGGACAGTGCAGTTTTTATCTCCTGGGAGTCCTTTGTGACACTGAGGAATCGGGAGTGCCAGGAATCCCATTTCCATGGGCTCTTAAGATGTTAGGGTGAGAAGGGTTTGAGGTAGTAGCCAGCATTTTACAAAGGTAGCAGGGTTCTCCAGCACCTGGTCTTGGTGGTTGACAGCTCTTGTCATCCATACCACAAGTACCTAGGGCTCTTGGCCTTGAACTTTCTGAATCAGAACCATGAAGACTGAGCCTGAGTTTGTGTGCCTGGTTCTTACACCTCTAGTCCATGCAGTCGAGTCCCCTCAGTAGGTCTCACCGCCTGCTCACTGTCCTGCAG
Seq C2 exon
GTACCCGCATGATGTGGTGAACCACCTCAGCTGTGATGAGGCCAGGAACCACTATGGAGGTGTGGTCAGCCTCATCCCCATAGTCCTGGACCTAATGAAAGAGTGGATCGCTCATTCCGAGAAGCTGCCTCGCAAAGTGCTGCAGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012697:ENSRNOT00000017004:3
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=0.020
Domain overlap (PFAM):
C1:
PF151201=DUF4561=FE(40.1=100)
A:
NA
C2:
PF151201=DUF4561=FE(29.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACATTACTGCAATAACTCCACCGA
R:
CACTTTGCGAGGCAGCTTCTC
Band lengths:
326-880
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]