DreINT0131062 @ danRer10
Intron Retention
Gene
ENSDARG00000077093 | scaf4a
Description
SR-related CTD-associated factor 4a [Source:ZFIN;Acc:ZDB-GENE-030131-9003]
Coordinates
chr10:25751098-25751383:-
Coord C1 exon
chr10:25751298-25751383
Coord A exon
chr10:25751143-25751297
Coord C2 exon
chr10:25751098-25751142
Length
155 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
GAAAACATTTTGTCTTTCAGTTA
3' ss Score
7.82
Exon sequences
Seq C1 exon
AGTTGTTCTCCTTGATGGACACCAAGCCCCCCATCTCGAGGGCCAAGATGATCTCTATCACCAAATCTGCCATAAAAGCTATCAAA
Seq A exon
GTAAGTCTGTCTTGTTGTTGATTGCACACATCTTCACATTGGATACTTAATATGGTTAGTTAGAATATGATTTAAATCTGTTTACTTGTCACCCATGAGGCTTGTAGTCAAAGATACTTGAACGCAGTGACATTTGAAAACATTTTGTCTTTCAG
Seq C2 exon
TTATACAAGCATGTTGTCCAGATAGTGGAAAAGTTCATAAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077093:ENSDART00000140483:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.047 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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTTGATGGACACCAAGCC
R:
TCTTTATGAACTTTTCCACTATCTGG
Band lengths:
122-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]