BtaINT0128943 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031917 | SCAF8
Description
SR-related CTD-associated factor 8 [Source:HGNC Symbol;Acc:HGNC:20959]
Coordinates
chr9:92846553-92847813:+
Coord C1 exon
chr9:92846553-92846632
Coord A exon
chr9:92846633-92847695
Coord C2 exon
chr9:92847696-92847813
Length
1063 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGC
5' ss Score
4.95
3' ss Seq
ACACTTTTTTTTCATTGTAGTTC
3' ss Score
8.24
Exon sequences
Seq C1 exon
AAGTTGATGGATAGGTTTGATTTTGGAGAAGATTCTGAGCATAGTGAAGAACCCAAAAAGGAAATTCCAGCTTCTCAACT
Seq A exon
GTAAGCGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTGATGATAAAGAGATTCTACTTGAAAAATTAAGAACTAATGTTTTAGACTACAAAGCATTTGAGATCATGTAGATCAGTGTCCTGAGCAATGTAAGAATCTCCTGTAACAGTCCTGATAGGTTTTTTAATCTGTTGTTTTAATGCCTCCTATGACAGAGTTAAGTAGTTGTTAATATACGGTTTGATCTTTTGTTACTGAATCCTACGGGATTTGCTTTCTACACACTGATCCATTTTGCTTTCTGAAGCAAGGAAGCAAATTTGCTCCATAATCTATTGAGACATAGCCATTCAGTATTTGAAGATAGGTATCATTCTTCCCCTTAGGTTTATTTGCTCCAGATGAAGTACACTTTTTTCCAACTGTTTCAAGACTTCTCACCATCCTGATTGCCCCTTTTGGGGTGCCCTCTTTTTTGTTCATGTCTTACCTTGTGGCACCCAGAATTCCAGGTGTATTCCAGGTGTGAATTTCCCAGAGTATAGTTAAATTATTATTTCCTCTTATCTAAACACTCTTTCTGTTAACATGCCTAATAATGTGAAAGCAGATTAGTTTTTTTTTAAGTGTATGATCAGTTTTGATTGTAGATTGCATATATACTGATTGATGGAACATTTTTCCCATTGTGTCATGGTTTATAAGTGTTTCATTAAGATTTTCTTAAAATGCTCTAATGTAAAAAGGTACTAATTTATAGACAGTAATAGCAGATTTTCATCAGAGTATGTCTAACATGTAGTCAATCTGTTGAAACTATTGAAGAAGTATATTTCTATTTCAACATATTAATGTTCCGAGTTACTCTGTTTTCTGTATTAATATTAAAAGTAAACGCTGTAATAGAGTATATTCCATTTGTTGGCATTTTGGGGTGTTTTTGAATATTCTTTTACTTTCATATTATCTTTATTGAGTTTTAAAATATATTAACACTTTTTTTTCATTGTAG
Seq C2 exon
TTCTCATGTTTCGGAATCTGTGAACAATTCCATCTTTCATCAGATAGCAGAACAATTGCAGCAGCAAAACCTTGAACATCTCAGACAGCAACTCCTGGAACAGCAGCAGCCTCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031917:ENSBTAT00000045257:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.963 A=NA C2=0.600
Domain overlap (PFAM):
C1:
PF100254=DUF2267=FE(18.6=100)
A:
NA
C2:
PF100254=DUF2267=FE(27.9=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:
AAGTTGATGGATAGGTTTGATTTTGG
R:
CTTTTGAGGCTGCTGCTGTTC
Band lengths:
198-1261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]