BtaINT0128942 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031917 | SCAF8
Description
SR-related CTD-associated factor 8 [Source:HGNC Symbol;Acc:HGNC:20959]
Coordinates
chr9:92844766-92846632:+
Coord C1 exon
chr9:92844766-92844942
Coord A exon
chr9:92844943-92846552
Coord C2 exon
chr9:92846553-92846632
Length
1610 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAA
5' ss Score
6.33
3' ss Seq
TTTTTTTTTTCCCCACTTAGAAG
3' ss Score
7.92
Exon sequences
Seq C1 exon
CTTCAGCAGTTAATACAGACTTTACAGATACAGCAGCAGAAGCCTCAGCCCTCCATCCTGCAAGCCCTGGATGCTGGTCTTGTCGTCCAGCTGCAGGCTCTTACAGCACAGCTTACAGCAGCAGCTGCAGCAGCCAACACCCTTAATCCCCTAGAACAGGGGGTGTCTTTTAACAAG
Seq A exon
GTAGAAATTAGGATAACCAATCTGTTCTATATGAATAACTGAATTTTCTATACTATCATGTAGATTGCAATTATGTAAACTACATTTTACCGTAAAACTGTTTTATGTTCTAACATCCATTGTACTCTATAAGGGTTTTCCTGGTGGCTTAGACAGTAAAGAACCCACCTGCAGTGTGGGAGCCCTGGGTTCAATCCCTGAGGGTTGAGAAGATCCCCTGGAGAAGGAAATGGCAACCTTCTCCAGTATTCTTACTTGGAGAATCCCCATGGGCAGAGCAGCCTGGCAGGGTACAGTCCATGGGGTTGAAAAGAGTCGGTCGGACATGACTGAGCGACTAAACACAGCACTGTATAAGGGGCTTCCCAGATGGCTGCCAGTGTAGGTGACATAAGACGTGCAGGTTCATTCCCTGAATTGGGAAGATCCCCTGGAGGAGGGCATGGCAACCACTCGAGTACTCTTGCCTGGAGAATCCTATGGATAGAGGAGCTTGGCGGGCTACAGTCCATAGGGTTGCAAAGAGTCAGACATGACTTAAGCGACTTAGCACATGTGCATGTACTGTTATTAAGTAAATGTTACTTAATAACTTAACAATTATTAAGTAAATATTACTGTTTATTAAGAAATACATTTTACAAAAGATTCAAATTTCTGAAAGGAATTTAAGTAATTTTATAAATCCACTTGAAACATTTATTTTCTTTTGACTAAAGAAAACTAGTCAGTAAAATTGTATATTCACTATTGAGGCAAATGATTGTTTTTGAGCTGATTTTTATGGATGTTACAAATTAATTAATTATAGTGTCTAGCCTGTAATTTTAACCTGCTAAAAGTAAAATTGTAAAGTATGTGAAAGTTCAAAGGAAAGCTTCTTTATAAGTTGCTACTATAATATGATAAATTGAGATATAACTGGAAAGAATAGTGTTTTCAAAGTTGAAAATCTTGGCTGTTTAACTCGGGTGATATCCTCAGTATTCTTGCTGATTATAGGAATATTATCCCTTGGAAATGTTATCTATATTCTTTTTATTTCTGCTGTTATTTTCATAGAAATATAAATATTGATTTATTAGATTATATTACTTAGGCTTGTTTAGCCCACAGCTTTCAAAAAGCCTTTATATTGATCATTTAAAAGACAGTGGAGCATTCTGAGAGAACTGTACTAGTAGTAGATCTGTTGATTATAGTTCTGTAGATTATAGTTCTAGATTTTTTTTTTTAATAAAATTGTTTTACATTTGACAAGCCACTCAATTATTTAAACCCTAATCTTCTCTTCTATAAAGTTAAAGTATTGGTAATTATCCTATGTGTCATGATTGTTCTGCTTCATAAGACAACGTCTGTCAGAATTCTTTGAAGAGAAGTAAAGGTCCATTCAAAATGTTTTTATAGTATAACAATAAACAATAAAATTATATGAAATAAACAGCATGTAACAATAAAATTATATGAAAGAAATAGTTACATTTTAAATGATAGAGATAAGTTAATGGAATGTCAATGATCTTTAGAATAGCATTTGTAACTTGTATTTGTGTAAAGTACTTTTAAATTTATCTCTTTCTCTCCCTCTTTTTTTTTTCCCCACTTAG
Seq C2 exon
AAGTTGATGGATAGGTTTGATTTTGGAGAAGATTCTGAGCATAGTGAAGAACCCAAAAAGGAAATTCCAGCTTCTCAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031917:ENSBTAT00000045257:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.220 A=NA C2=0.963
Domain overlap (PFAM):
C1:
PF100254=DUF2267=PU(2.1=5.1)
A:
NA
C2:
PF100254=DUF2267=FE(18.6=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:
TCAGCAGTTAATACAGACTTTACAGA
R:
AGTTGAGAAGCTGGAATTTCCT
Band lengths:
255-1865
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]