DreINT0156158 @ danRer10
Intron Retention
Gene
ENSDARG00000029252 | ssb
Description
Sjogren syndrome antigen B (autoantigen La) [Source:ZFIN;Acc:ZDB-GENE-030131-223]
Coordinates
chr6:3564625-3565010:+
Coord C1 exon
chr6:3564625-3564817
Coord A exon
chr6:3564818-3564893
Coord C2 exon
chr6:3564894-3565010
Length
76 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
CATTTACACTGTGATTGCAGGAG
3' ss Score
3.98
Exon sequences
Seq C1 exon
GGCACCATCCTGTTCCACTCCAACGCTAAAGAGGCTCTCCAGAAAGTCCGAGAGGCTCTCAACGGGGAGGATCCCAAGGTGAAGGAGCAGGCCGTTCAGTGGGAGATTCTGGAGGGAGACGTGGAGATGGAAACACTGAAGAAAATCATCGAGGATCAGCAGGAGTCAATAAACAAACGCAAAGGAGGCCGAG
Seq A exon
GTAAATCACAGGACATCATGAAGACACATGCCACGGTCTAAACCCACTGTTTACCACATTTACACTGTGATTGCAG
Seq C2 exon
GAGGGTTCAGGGGTCGAGGAAGAGGACGAGGAGGCCGCAGAGACCGAGGAGGACGAGAACACACTCAGTTCAAGGGAAAGAAGACCAAGTTTGATAGCGATGAAGAGGGAGATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029252:ENSDART00000041627:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.677 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF087776=RRM_3=PD(61.2=96.9)
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:
GCCGTTCAGTGGGAGATTCTG
R:
AGTGTGTTCTCGTCCTCCTCG
Band lengths:
168-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]