BtaINT0128915 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018855 | SCAF4
Description
SR-related CTD-associated factor 4 [Source:HGNC Symbol;Acc:HGNC:19304]
Coordinates
chr1:3095426-3095767:+
Coord C1 exon
chr1:3095426-3095591
Coord A exon
chr1:3095592-3095680
Coord C2 exon
chr1:3095681-3095767
Length
89 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAC
5' ss Score
7.29
3' ss Seq
CATTGTTTTTCTTATTCTAGGTT
3' ss Score
10.57
Exon sequences
Seq C1 exon
GTCCCACCACATCAGCCAGGACCTCCTGTAGTTGGTGCTCTCCAGCCACCTGCTTTCACGCCTCCTTTGGGAATTCCACCTCCAGGCTTTGGGCCTGGTGTTCCTCCTCCTCCACCTCCGCCACCGTTTTTGCGCCCAGGATTCAACCCAATGCATCTGCCACCAG
Seq A exon
GTACACTAAGTTATTTGAGAAGATACTCTCTTTTAAGAGCCTGAAATAAAGTGACACAACTTAAGTTGGCATTGTTTTTCTTATTCTAG
Seq C2 exon
GTTTTCTTCCCCCTGGACCCCCACCTCCTATAACTCCACCAGTATCCATTCCTCCTCCTCACACTCCACCAATAAGCATCCCAAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018855:ENSBTAT00000025104:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
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:
CTTTCACGCCTCCTTTGGGAA
R:
GTGGAGTGTGAGGAGGAGGAA
Band lengths:
183-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development