RnoINT0143760 @ rn6
Intron Retention
Gene
ENSRNOG00000007998 | Ssb
Description
Sjogren syndrome antigen B [Source:RGD Symbol;Acc:620804]
Coordinates
chr3:56098008-56098290:+
Coord C1 exon
chr3:56098008-56098115
Coord A exon
chr3:56098116-56098189
Coord C2 exon
chr3:56098190-56098290
Length
74 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
CTTTATCTGTCCTTTTGTAGGGG
3' ss Score
10.66
Exon sequences
Seq C1 exon
AAAGGCTTCCCAACTGATGCCACCCTTGATGATATAAAAGAATGGCTAGATGATAAAGGCCAAATACTGAATATTCAGATGAGAAGAACATTGCACAAAACATTTAAG
Seq A exon
GTATGATTATTTGATGTAGACTTTCTAGTTGTGAAATATCACTTTAAGGAAAATCTTTATCTGTCCTTTTGTAG
Seq C2 exon
GGGTCAATATTTGCTGTGTTTGATAGTATTCAGTCTGCAAAGAAGTTTGTGGACACCCCCGGCCAGAAGTACAAAGACACTAATCTGCTAATACTCTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007998:ENSRNOT00000011174:5
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:
PF0007617=RRM_1=FE(50.7=100)
A:
NA
C2:
PF0007617=RRM_1=PD(42.0=85.3)
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:
CCAACTGATGCCACCCTTGAT
R:
GTCTTTGTACTTCTGGCCGGG
Band lengths:
177-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]