BtaINT0124254 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013645 | RFFL
Description
ring finger and FYVE-like domain containing E3 ubiquitin protein ligase [Source:HGNC Symbol;Acc:HGNC:24821]
Coordinates
chr19:15378253-15378570:+
Coord C1 exon
chr19:15378253-15378279
Coord A exon
chr19:15378280-15378375
Coord C2 exon
chr19:15378376-15378570
Length
96 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTAG
5' ss Score
3.1
3' ss Seq
CTTTCTCCCCTTTCTTCCTTGCA
3' ss Score
-4.98
Exon sequences
Seq C1 exon
CCGTCCTCACCTTGCCTCTGGCGGCAG
Seq A exon
GTGTAGACCTATATGGCGGTTCACCTGTGCCCGCGGGGGTGGGAACCCAGTTGAGGTGTGTCTTTTTAATTCTGACCTTTCTCCCCTTTCTTCCTT
Seq C2 exon
GCATCAGATCTTATCATGTGGGCAACCTGCTGCAACTGGTTCTGCCTGGATGGACAGCCTGAGGAGGCCTCACCGCCCCAGGGAGCCAGGACACAGGCCTATTCCAACCCTGGGTACAGCTCCTTCCCTTCTCCCACGGGCTCAGAACCAAGCTGCAAGGCGTGTGGGACTCACTTCGCAAGCATGGCCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013645:ENSBTAT00000018136:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.138
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0231811=FYVE_2=PU(31.3=32.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGTCCTCACCTTGCCTCT
R:
TTCTGAGCCCGTGGGAGAAG
Band lengths:
174-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]