BtaINT0128912 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018855 | SCAF4
Description
SR-related CTD-associated factor 4 [Source:HGNC Symbol;Acc:HGNC:19304]
Coordinates
chr1:3091868-3092838:+
Coord C1 exon
chr1:3091868-3091981
Coord A exon
chr1:3091982-3092681
Coord C2 exon
chr1:3092682-3092838
Length
700 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
TTTAACAAATGTTGAACTAGATT
3' ss Score
4.29
Exon sequences
Seq C1 exon
ATGATTCCTCCCAGAGGTTGTGCCTATATTGTTATGGTTCATAGGCAAGATGCCTATCGTGCCCTGCAAAAACTGAGCCGAGGGAACTACAAAGTGAACCAGAAATCCATAAAG
Seq A exon
GTACTGTTTTATCATTTATAATTCATTTTTTAAAAAATGTAACATATATTATGAGACTTTTAAAAACTGTAGTTTTGGACACTGGGGTATTATTACATGTGCATCTTTTTTTTAAGAGGTTATCTCCTAAGAGTTACAATTTTAAACGCTAGGTATATGGTAGAATTTTGTCTTTTTTTTTTTTTAAGTTTGCCATCTCAGAACTATGAAAAATAATCACTAAAGATAGAGGGAAAGATATAGGTACATGGGTGTTCTTCCTCTGAGGGGTCAGAGTCAGTGTTTCCTTCAAGTCCCAAAACCCTGTTCCACACTTGGATTTCACTGCAAAAGGATTTTGTCTAATGTTGAATAATTCTGATGTACCCAAGACTTTTAAAAGTGTTCCCTACTTTCTTATGCCCAATCAGCCAGTCCCTGATAAAATTTTCCCTTTTCTCTTAGTTTTATGCTGTCTGAGTAGGGGTGATTGGAAGAGTGAGAAAGAAGGTCATTGACAGTCAGATTTCCTTCTAGGACAAACAAGAGTGGGATGAAAGGGTAACCAGATTCCTGGCGCCAAAGATGCTTTGAGTGAGCCCCATGGGTAGCCAGGCCAGATTGTTCCCTTGCTGACCAAGTCTGAGTGATTGGAATCATGGGAAACAGTTTATGACATTCTTCTCCTTTCCTTTTTATATTTTAACAAATGTTGAACTAG
Seq C2 exon
ATTGCCTGGGCCCTAAACAAAGGAATAAAAGCAGATTATAAGCAGTATTGGGATGTAGAACTTGGTGTTACTTATATTCCATGGGACAAAGTCAAGCCTGAAGAACTGGAGAGTTTCTGTGAAGGAGGAATGTTGGACAGTGATACACTTAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018855:ENSBTAT00000025104:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.226
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(55.2=100)
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:
CCTCCCAGAGGTTGTGCC
R:
TGGATTAAGTGTATCACTGTCCAACA
Band lengths:
264-964
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development