DreINT0131066 @ danRer10
Intron Retention
Gene
ENSDARG00000077093 | scaf4a
Description
SR-related CTD-associated factor 4a [Source:ZFIN;Acc:ZDB-GENE-030131-9003]
Coordinates
chr10:25749154-25749591:-
Coord C1 exon
chr10:25749449-25749591
Coord A exon
chr10:25749331-25749448
Coord C2 exon
chr10:25749154-25749330
Length
118 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
GTTACTCGTGCTTTCTGAAGCTT
3' ss Score
4.92
Exon sequences
Seq C1 exon
CTTCTCCACAGTCTCCCGTGAGGGAACAGGAGGCTCATCCTGTGGTGACGACAAACTCAATTGTAGCAGCTGTGCCTCAGCTTCAGAACTCGGATGCCTTTGCTGCAGTTGCTCAGCTAATTCAGTCTTCTCAAGGACAGCAG
Seq A exon
GTTAGTCGGATTATTAGCATTGCACTGCATTTTCTGCAGAACTCTTTGCAAACATGTACCATACACCAAAAAAAATAAAATCTGTTGAGATAGTCATAGTTACTCGTGCTTTCTGAAG
Seq C2 exon
CTTCAGCAGATGCTGCAGAACTTTCAGCCACCAGGGAAACCTCAGTCTCCGGTGGTGGACAATAACAGGAGTCATCTCCATCTACAAGCCCAGGCTATAGCACCCCCATCCACCATCCCACATCAGCACATCCATCACGCACCGCAGCCTGTGGAAAAGAAAGCCACCTTCGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077093:ENSDART00000140483:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.479 A=NA C2=1.000
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:
TTCTCCACAGTCTCCCGTGAG
R:
TGGTGGATGGGGGTGCTATAG
Band lengths:
257-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]