RnoINT0141943 @ rn6
Intron Retention
Gene
ENSRNOG00000012697 | Spaca9
Description
sperm acrosome associated 9 [Source:RGD Symbol;Acc:727909]
Coordinates
chr3:7269853-7270832:-
Coord C1 exon
chr3:7270685-7270832
Coord A exon
chr3:7269924-7270684
Coord C2 exon
chr3:7269853-7269923
Length
761 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
GTTGATTTTTCCCTTCACAGGGG
3' ss Score
8.7
Exon sequences
Seq C1 exon
GTACCCGCATGATGTGGTGAACCACCTCAGCTGTGATGAGGCCAGGAACCACTATGGAGGTGTGGTCAGCCTCATCCCCATAGTCCTGGACCTAATGAAAGAGTGGATCGCTCATTCCGAGAAGCTGCCTCGCAAAGTGCTGCAGCAT
Seq A exon
GTGAGTGAGATCCTGGGTAACCTGGCAACTCCAGCACCAGCCGCCACCAGCCCTGCCCAGACCACGGTTACCCAGAAGTGGTTAGGAAAACACAAGTATAGGCAGCTTGCAAAAGAGAGCCTCAAACCTAGTTCGAAGAACAAAGCCTCCCTGAAACCTCCCTGGAGGCCGCCTGGTGGGAAACTGTAACTGATGTCAATGTACTTGGCTTCCACTGGTCATATTCTCACTGGGGGCCAATACACTATTGAGAATCTCTCTCTTGCTCTTCACTTCTAAAATGTCCGCCTCTTGACCTCCGTGTTGATGAAAGGATCCCCTCTCATGGAGCTGCCCAAACAGCATGGTGTTGGCAGGGTATGTCCCAGAGGAAGGAGGATGTGCTGATGCCCAGGCCTCTTGCCTACACTGTGGCCTCTGGCTCTGTAGAATGCCAGCTGGTGGGGGCCGCTTAGCTCTGTCTCCACAAGGGCAAACTGGATGAGCTGGAGGTCTCTCATGAACCGGTGTGCGGGGGGATCAGAAGGCTGAGCTCACTTGTGTTCAGTTCTCTGGACCAAAATAAGGGATATATGCTCTCTCTTGTAGCTGAGAGAGGGAGACCATGGCAGAAGTCAGAAGAATTGTTTTGTATCTCTTGAGCGAGACAGCAGCCTGGTCTTGATCGCAGTCTAGTCTACCCACACTGTAAGATGTATGTATACTCCTGGTGTCTCAGCTTGACACGTGTGAGGTCTGACTGTTGATTTTTCCCTTCACAG
Seq C2 exon
GGGACGACTTAGCTTCTGTACTGTTGCTTCCTCGGGGGGAGACATTCAAGAATAAAATGTTCTGCCACTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012697:ENSRNOT00000017004:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF151201=DUF4561=FE(29.3=100)
A:
NA
C2:
PF151201=DUF4561=PD(0.6=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACCCGCATGATGTGGTGAAC
R:
AGTGGCAGAACATTTTATTCTTGA
Band lengths:
216-977
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]