RnoINT0141958 @ rn6
Intron Retention
Gene
ENSRNOG00000010078 | Spag1
Description
sperm associated antigen 1 [Source:RGD Symbol;Acc:1310702]
Coordinates
chr7:75008533-75009463:+
Coord C1 exon
chr7:75008533-75008642
Coord A exon
chr7:75008643-75009357
Coord C2 exon
chr7:75009358-75009463
Length
715 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
TCATGTGAGTTTATTTCTAGGTC
3' ss Score
4.84
Exon sequences
Seq C1 exon
ATTTGATGTGGAAAAAGAGTGTTCAAAGATTGATGAGGATTACAAAGAGAAGACTGTCATAAACAACAAAGCTCATTTGTCTAAAATTGAGACGAAAATAGACACAGCAG
Seq A exon
GTAATAAGAGGAAAGGGGGGTTGGTCCTCTTCCAACCTTTTAATTACAGGAAACATGTCAGCTGAGGACATATTGTCCTTGAGCACTACTGATTTCCATGAATGTTCGTAGGCTTCGGCCAGAGTGGACCGCTCCTAACAAGTTTATTTCTAGTGAACTCACCATAGCTTGAGCTCGGACTTCTGATCCTCCTGCCTCCGTTATGTAAGTGCTCCGGTTAGAGGTGTGCACCACCGTGCCTGGCTTTAATAATGATGTTTGTAAGACTTTAAATAGAAACATACTTCTCTTAGAATATTCTTTTGTTTTCCATTTCCTTTTTCCAACCCTCTTTAAGAAAAATTCTCATCTTTTTGCATCAAACAAAAGAAATGAGACACCTTTTCATCTGAAGTCCATACAAGCCCTTTAAAGTAATAGTTAAACCAGCTGTAAGAAAACCAACCCTAAAAACAAACGTAGCTAGAAGAGAAGAAATAGCCCCAAACTCGAGAGCTTTTATTTTGTTTGTTTAACCCATGGCTTTCTTCTTCATTAATATAACTATTCTTGGATATGGCAGTATCGAGTATCGCTCAGTGGTGGAACACTTGTTGGCCTTGCCTGAGGCCCTAGGTTCTAGTTCCAGAGCCACCCTAAAATCAAAGCACTCAAGCATTCAAACATTGAGAGAAGTCGTCTTAGGTTGTGTGCTTTCATGTGAGTTTATTTCTAG
Seq C2 exon
GTCTGACTGAGAAGGAAAAGAATTTTCTTGCCAACCGTGAAAAGGGGAAAGGGAACGAGGCGTTCTACTCAGGAGACTACGAAGAGGCTGTGATGTATTACACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010078:ENSRNOT00000013801:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.132 A=NA C2=0.250
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134141=TPR_11=PU(39.4=72.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGATGTGGAAAAAGAGTGTTCA
R:
TGGTGTAATACATCACAGCCTCT
Band lengths:
214-929
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]