RnoINT0068001 @ rn6
Intron Retention
Gene
ENSRNOG00000028801 | Gsap
Description
gamma-secretase activating protein [Source:RGD Symbol;Acc:1563271]
Coordinates
chr4:10436028-10437925:-
Coord C1 exon
chr4:10437864-10437925
Coord A exon
chr4:10436193-10437863
Coord C2 exon
chr4:10436028-10436192
Length
1671 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
AGTGCCTGTCCTGTTTTCAGATG
3' ss Score
10.03
Exon sequences
Seq C1 exon
AGCCAAGGTTAATACCCCTCTTACAAGAGGAAGACAGGCACCAGAGGCTGCTCATGGGCCTG
Seq A exon
GTAAGTAGTCCGTGTGCTTCTGAAGTGCTGTCCGGCAGTGGTCTCCAGAGACGGTAGGAAGGACAGACTGCTGATTGTTCTGATGGTATTTTCTGCTGACTTTTGAACAATAGGTGCTCCCAGCACCGTGGGCCTGGGTATCCAGTGGCAAACAGAACGTGAATGATTTCTGCCCTCTTGGGAAGAGGGGTTGGGTTAGTCACAAGAATAAGCATATAATCATAAACGGTGATAAAGAGTACGTGTGTGTATATATGCCTATATTCTGTGATTCCGGGCACACACCGCTGCTTCTAGCTTTTACGTGGGTCCTTGGGATCTGAAGTCAGGTCTTCAGACTTACAGGACACTTTTACCCAATGGACCATATCCATGGCCTGGTTTTGCCTTTTGTCTATCAAATTGACAAAGTTATGATTATTAACAAGGTTCAGGACAGGGAATTGGCTGTTTTCGTGACCCGCACTGAAAACCAGAACAAACTATTTCAGTGATATCTGTGAAAGTATGAGACCCAACCAGTTCCACTTCCAGGAACTGGATCTGACTGACAAGTTGTCGCTGTAGCAAACCCTTTTAGCTCTCTCTTTACAGTGAGACTCCTGAATGACAGGACACTACCCCAGTGCCTGACACTGATGCAAACTTTTCTGTCAGATCTGTGTGTGCACATGCGTGTGCCTCTGTACCTGTGCACACGTGTGTGTAGAGTTATTAACAACAGTGAAAGAAACAGGTAGAAGAAAGAAAAATAATTTTACTTTTTACAAAATTAAATACATCCAGTCATTAAAGCTGGTGTAAAATGTTTAATGACATAGAGGAGTTATTACATAGGAAGAAACATTAGAATTCATGTGCACACCCAAGTAAGGCAGGGCTAAGATGTTCATGCAGACGAGGAACTTTGAGATCCTTTAAGTTTATTTAAATTTTATATTTTATTTTGTGTATTTGTTTGAGCCACAAGCCATGTCTTACGTAGCCCACGTGAGCTCACTGTGTCTCTAGGAGGACCTGACCTTGAACTCCAGACCCTCCTGCCTTAGCCTCCCATGTGTTAGGATTATATGAGGATTGAGCCAGGCATTAATTTTCAGTAACTTATAGGCATTACAGAAAAGTTTAGTAAGCCAATGTACACAATATTTCATAGAAGAAAATTTAAAAGTCCAATGAACTAACTCATTCAAGAGGCTGAATTGAAATACAGTGGCATTGTGTCTCGTTGCTGAGGTCACTGTCTCTCCATGGAGCACGGTCACTCCGTGGAGCACGGTCACTCCACAGAGCACTGTCTCTCTGTGAGACACAGTCTCTCCATGGAGCAAGCACAGTCTCTCCATGGAGCAATCTTTCCATGTCTCTCAAAGCCTGTAACTTCAAAGCTGGAGCCAAGAGCTTCCTTGTAGGATTCTCCTCAGGGCTGAAGGACTCCCAGTTGCCCACTGGCTTTGGTTAAGAAGTTCCTCCTGAGAGAAATGTTGAAGCCATGTTTATGCCAGCAGAGGACAACTGAGAGTCGTGTACCTTTTGGGGAGCAGGGGTGGATTTTTCCAAGAGCGTGGGTTTTTCATGTTTATATGAAATATTAATAATGGTCCTAATTAAAATCAGTTACAGGCGTGCATAGGCCTGTGGTGACTTATGTAGTGCCTGTCCTGTTTTCAG
Seq C2 exon
ATGGTGTCTGAGCTAAGAGACCATCTACTGAGACACCTGCAGGGTGTAGAAAAGAAGAAAATTGAACAGATGGTTCTGGACTACATTTCAAAACTGGTTGGTTTTACTTTTTCTTCTAATTTCAACTGTCTCCTTAGCCCATGAACAATTCTCAAGATGTAATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028801:ENSRNOT00000039953:22
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCAAGGTTAATACCCCTCT
R:
ACATCTTGAGAATTGTTCATGGGCT
Band lengths:
222-1893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]