RnoINT0131058 @ rn6
Intron Retention
Gene
ENSRNOG00000002104 | Scaf4
Description
SR-related CTD-associated factor 4 [Source:RGD Symbol;Acc:727896]
Coordinates
chr11:30395160-30395824:-
Coord C1 exon
chr11:30395631-30395824
Coord A exon
chr11:30395351-30395630
Coord C2 exon
chr11:30395160-30395350
Length
280 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
GAGTGCTCACCTCATCTTAGTGG
3' ss Score
2.64
Exon sequences
Seq C1 exon
AAGCTGCTTGACAGATTTGATTATGATGATGAGCCAGAAGCTGTGGAAGACTCGAAGAAAGAGGATGCTGTCGCCGTTGCCACCACAGCCCTTGCCACGGCTGCACCTCCTGTGCCCGCTGCAGCCACACCTGCTGTTGCTCCTGCTGTGCCTGCGTCCTCTGCTACCTCTCCCCCTCCTCCACAGGCGCCATT
Seq A exon
GTGAGTGCTTCCTGAGCCTGATAGTAACAGTTGCAAAGCATAATCTCAGCAACAATTGGGATTAAAACACAGTGCAGTGCAGTCTCTGTTTTATAAAATTATATTAAAGAAATTTCTATTGGGAATAGTGTCCTTATCAGAGTTAGACATTTTAAAATGTGGTTTTTGCATTGTACTAAATTTGTTGATTGCCTATTAGTCCAGAGTGTTATTCCGCCCTGTAGAAGTGACTTAGGGCATTCAGTGCTTTAGTGGGTAATGAGTGCTCACCTCATCTTAG
Seq C2 exon
TGGGTACCCTGGAGACGGCATGCAGCAGCCAGCGTACACACAGCATCAAAATGTGGACCAGTTTCAACCTCGAATGATGGCACTGCAGCAGGATAGCATGCAGCATCAGGTATGGGCATTTTCTTGGATTGACCTTGTACTTCTGAGCACTGCTGTGACTACAGAATCTGCTAAGGAGAGCAGCAGCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002104:ENSRNOT00000002881:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.877 A=NA C2=0.651
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGAAAGAGGATGCTGTCGCC
R:
GTCACAGCAGTGCTCAGAAGT
Band lengths:
299-579
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]