RnoINT0143755 @ rn6
Intron Retention
Gene
ENSRNOG00000007998 | Ssb
Description
Sjogren syndrome antigen B [Source:RGD Symbol;Acc:620804]
Coordinates
chr3:56100888-56101334:+
Coord C1 exon
chr3:56100888-56101083
Coord A exon
chr3:56101084-56101178
Coord C2 exon
chr3:56101179-56101334
Length
95 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATT
5' ss Score
6.49
3' ss Seq
TCTAAGTCATCTTTTTACAGCAG
3' ss Score
4.89
Exon sequences
Seq C1 exon
GGAATAATTCTCTTCAAAGAAAAGGCTAAGGACGCACTTGAGAAAGCCAGAAGTGCAAATAATGGTAACCTACTGTTAAGGAACAAAAAAGTGACTTGGAAAGTACTAGAAGGACATGCAGAAAAAGATGCAATGAAAAAAATCACAGATGATCAACAAGAATCTCTGAACAAATGGAAGTCAAAAGGAGGTCATG
Seq A exon
GTAATTCTCTTTTTTTTTCATGAATTAACTTTACCTCATTTTCGTTTTCAGCACACGTAACATCTTGATTAAAGTTCTAAGTCATCTTTTTACAG
Seq C2 exon
CAGCCCGCAGATTTAAAGGAAGTCATGTTTTTACAGCAGCTCGCAGATTTAAAGGAAGAGGGAAAGGTAATAGACCTGCTTATGCTGGGGCACCCAAAGGAAGAGGACAGTTTCAAGGAAGGAGGACAAGATTTGATGATGATGATCATCGTCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007998:ENSRNOT00000011174:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.485 A=NA C2=0.943
Domain overlap (PFAM):
C1:
PF087776=RRM_3=PD(60.6=95.5)
A:
NA
C2:
NO
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:
ACTTGAGAAAGCCAGAAGTGCA
R:
TTCCTTTAAATCTGCGGGCTG
Band lengths:
182-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]