BtaINT0128911 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018855 | SCAF4
Description
SR-related CTD-associated factor 4 [Source:HGNC Symbol;Acc:HGNC:19304]
Coordinates
chr1:3091334-3091981:+
Coord C1 exon
chr1:3091334-3091434
Coord A exon
chr1:3091435-3091867
Coord C2 exon
chr1:3091868-3091981
Length
433 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
TATTAAATCTTTTTGAGCAGATG
3' ss Score
5.23
Exon sequences
Seq C1 exon
TTTGTAGTACTACACTCTGGGTGGGACAGCTGGACAAAAGGACTACTCAGCAGGATGTTGCCAGTCTTTTAGAAGAGTTTGGTCCAATTGAATCAATTAAT
Seq A exon
GTGAGTATTTATTAAATTTCTTAACCACAGTAGATAGAAGTGGTTAATGTTATTTTGTGAAATTAAGGACTTGAGACCTAAGTTAAAATTGGTCTAGGTTTGTAGAAGATGTGGCTGGAGTTGAGGTGTTTGTTCTAAGTTTTTGTTTAGCATTTAAGTACATTTTTTGGATAACCAAATTTAATCTAAAATCTTTTTCTAAAAATGACTTTATATAACAAAGCTTGGGGCTGTAGATTGTTGATGATTGGCAGTTGAGACTAAATTGGAGCCACCAGTTTTCAGATTTTTTTAAACTCCAGTTATAGAACACAGGGCTCTGGAGTGTGTAGGGGATTGGAATTGAGGTTGTTGGAACTGACTGCTTAATATTATGTCTTGTTGCTTTTTGGTTTTGTTATCATGTTTTATAATATTAAATCTTTTTGAGCAG
Seq C2 exon
ATGATTCCTCCCAGAGGTTGTGCCTATATTGTTATGGTTCATAGGCAAGATGCCTATCGTGCCCTGCAAAAACTGAGCCGAGGGAACTACAAAGTGAACCAGAAATCCATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018855:ENSBTAT00000025104:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(41.8=82.4)
A:
NA
C2:
PF0007617=RRM_1=FE(55.2=100)
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:
GTGGGACAGCTGGACAAAAGG
R:
TGGATTTCTGGTTCACTTTGTAGT
Band lengths:
190-623
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development