BtaINT0128924 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018855 | SCAF4
Description
SR-related CTD-associated factor 4 [Source:HGNC Symbol;Acc:HGNC:19304]
Coordinates
chr1:3082034-3082687:+
Coord C1 exon
chr1:3082034-3082218
Coord A exon
chr1:3082219-3082578
Coord C2 exon
chr1:3082579-3082687
Length
360 bp
Sequences
Splice sites
5' ss Seq
CTTGTACGT
5' ss Score
5.14
3' ss Seq
AGACTGCTCATCTCTTTTAGTGG
3' ss Score
5.88
Exon sequences
Seq C1 exon
AAGCTACTTGATAGATTTGATTATGATGATGAGCCAGAAGCAGTGGAAGAATCCAAGAAAGAAGATGCTGTTGCCGCCTCGGCCACCACAACACCTGCTCCTGCCGCTGTTGTGCCCACTACGCCGGCCACCGCCACCGCACCTTCTGTGGCTGCGCCCACTGCCTCTCCTCCACAGGCACCCTT
Seq A exon
GTACGTCACTTTCTTTTGATTCCTCAGCAGATAGAACTTTGGTAGTCATTACAAGGCATAATGCAAGTAACACTTAATAGTCATTTTTCATATAGCGTCTTCTAAAATTCTTTTAAAAATTGTGGTATTTGGGGATTTCTTCTGAATGGGGAGGGGATCCTGTCAGATTTACAATAAAAAATGACTTTTATTTTGGGAATAATGCTGAGTTTTTAAGTTAATATAGGTAAATAAATGATTAAGTAAAATGTTGATTGTTAACAACTCCTGAACAGCAATCTGTAAGTTTGTGTAGCGTAAATGTGGCCAAGAATGATGTGTTTTTGAATGGGTAAAAAGAAGACTGCTCATCTCTTTTAG
Seq C2 exon
TGGGTTTCCTGGAGATGGCATGCCACAACCAACATATGCCCAACATCAGAACATGGATCAGTTTCCGCCTCGAATGATGGCAGTGCAGCAGGATCCAGTGCACCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018855:ENSBTAT00000025104:8
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:
TTGATTATGATGATGAGCCAGAAGC
R:
CTGATGGTGCACTGGATCCTG
Band lengths:
278-638
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development