BtaINT0128907 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018855 | SCAF4
Description
SR-related CTD-associated factor 4 [Source:HGNC Symbol;Acc:HGNC:19304]
Coordinates
chr1:3072635-3073234:+
Coord C1 exon
chr1:3072635-3072667
Coord A exon
chr1:3072668-3073150
Coord C2 exon
chr1:3073151-3073234
Length
483 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAAT
5' ss Score
-3.38
3' ss Seq
TTCCTTTTTTTTTTTTAAAGCTC
3' ss Score
9.58
Exon sequences
Seq C1 exon
GTGTCATTTTTATTCCTAACTAATCAAGAAATT
Seq A exon
GTGAATTCAAGTTTTATAATGACGTGTTAAGTTTCTTACCTGATGTAATACATGTGTATCTCCAAATGAACATCAGAATTATTTGAAGTCCTGCAAAATCTCAGTGAGGTTGGATTTGAAATATTAAATATTGAGTCACAGTATTGCCATTTTCAGTATAGGAACATGGTGTGTTTGTTTCCATTCAAATCAGTTTTGAGTTCTTCAGTAGGGTTTTGTAAATTTTCTGTTATAGATTTTGTCAATTTTTTTTTACCTTTTCCCCCTTTTTTGCTGATTTTAGCATAATCTTTTCCCATTCTGTTTTCAAAGTGGTGATGCTAGTATGTAAGAAAGCTCTTGGTTTTTCTTTACCAGACAAATTATTAAACCTAGTTTTAGAAATTTTATTATTCTTTTAGTTACAAATATATTTGTTGAAATGAAGGGTAAACCTCTAATTTTACTTTTAATTAAAACTTTTTTCCTTTTTTTTTTTTAAAG
Seq C2 exon
CTCTTTTCACTTATGGATATGAAACCTCCCATCTCTCGAGCCAAGATGATTCTCATCACGAAAGCTGCTATTAAAGCTATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018855:ENSBTAT00000025104:1
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development