BtaINT0128921 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018855 | SCAF4
Description
SR-related CTD-associated factor 4 [Source:HGNC Symbol;Acc:HGNC:19304]
Coordinates
chr1:3076713-3077312:+
Coord C1 exon
chr1:3076713-3076848
Coord A exon
chr1:3076849-3077172
Coord C2 exon
chr1:3077173-3077312
Length
324 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
AATGATCTTTTCTTTTTTAGGTT
3' ss Score
12.8
Exon sequences
Seq C1 exon
AGTAAAATAGTTCGTGTATTGAACCTTTGGCAAAAAAATGGAGTATTCAAAATTGAAATTATTCAGCCTCTTTTGGACATGGCAGCAGGAACCAGTAATGCTGCTCCAGTAACAGAAAATGTTACTAATAATGAAG
Seq A exon
GTAAGGTCAGGTGTGTCTGTGCACTTAGAGAATTGTGTCATTTTTTGTACATGATATGTTTGGAATCTATTTATAGTGATGGAATTTTTCTATAAGAAGGAAACTTGAGTTTACATCTTGGAAGATCAAGTTTTCTTCCCATCATTATTTCTAATAAAAGTATTCAGTGCGTGTTGCAGTATAGGCTGTAATACCATAATCTATATTTTTTACTGTATGTTAAACTGAATAGAGTATTGTTTTAGTAAAGAAGCTTAATGGAGTTTAAAGGAAATATTTATGAGTTAAAAGTTTTTGAGGCCTTAATGATCTTTTCTTTTTTAG
Seq C2 exon
GTTCACCTCCACCTCCAGTTAAAGTTTCTTCTGAACCTCCACAAGCCACTACAAACTCTGTACCAACTGTACCGCAGTTGCCCAGCTCTGATGCTTTTGCTGCTGTGGCCCAACTGTTTCAGACAACTCAAGGTCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018855:ENSBTAT00000025104:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.283 A=NA C2=0.596
Domain overlap (PFAM):
C1:
PF048188=CTD_bind=PD(24.2=34.8)
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:
ATAGTTCGTGTATTGAACCTTTGGC
R:
CTGTTGACCTTGAGTTGTCTGA
Band lengths:
270-594
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development