BtaINT0128940 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031917 | SCAF8
Description
SR-related CTD-associated factor 8 [Source:HGNC Symbol;Acc:HGNC:20959]
Coordinates
chr9:92840728-92841901:+
Coord C1 exon
chr9:92840728-92840881
Coord A exon
chr9:92840882-92841770
Coord C2 exon
chr9:92841771-92841901
Length
889 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
GTTTGATGTCTTTCTAAAAGGAA
3' ss Score
6.41
Exon sequences
Seq C1 exon
AGTAAAATAGTGAGAGTATTAAACTTATGGCAGAAGAATAATGTATTTAAGAGTGAGATTATTCAGCCTCTTCTGGATATGGCAGCAGGGATTCCTCCTCCAGTTGTCACACCTGTTCTGGCCAGTACTACTGCTGCTATGAGCAATACTCCAG
Seq A exon
GTATGTTGCTTTGAGAGAGATTTTCTGAGTGTTCTACTCATGCATTTCAGGCAATTATTCATATATGAAATAATAATTTGACAGTGCAGGATAATTTGTTTCACTTTAAGTAAATGAAAGGAAGTCTTAATTTGAAGGAAAAATAAAATCAGAAATTATATTTGTGTTTCATTCTTTTCAAAAAAATTAAAAAGCTAAGCTTTTAAAGTTCCTAGAAACATAACATAATCATCTTGGGAAGTTGGTATTTCAGTTAAATTTTTCCTGATATAGACTGTAATCTTCTAAACTTGCATATATATCAACTTGATATTCATAGTGAGCTAAGTGTACTTAATATATAAAGAGAACCCTGAAAAGATTTATTTAGTGGATCCAAGAATGAGTAATAATCTCAAAATCATGGAGGTTTTTTTGAGGTATTTAAATGACATTTGAATTTTTTTTTTTTAACCACAGTCTAAGAATTATATTTGTTATCATTTTGATGTATGTTTATTTTGGAGTATGTACATATACATTTTGGAACAATAAAAATTTTATGTACACTTTTATAATACTTTTTTCATCAGAGATTGAATATTTCCTTATGTCATTGAATTTTCTTCTTTAGTAAAGTATTTAATGATTTCCGAGGATTGTAAGCTCCTTTAAAATGGTAGCTTAGTTAATTGAAAATAAGTATGAAAAGCTCTTTTTGGTCATTTTTGTTGTTGCCATTTTGTTTTATTTAATGAACCTAATTCTGTAATGGTTTTTAAAGATGAAGACAGTAAAATTATATAAATTTGTACATATTTTTTAAAAGTGACAGAACAAATCTAATTTTCTACATCTTATTTATTTACTTACATATTTATTGGGGATGGGTTTGATGTCTTTCTAAAAG
Seq C2 exon
GAACTCCTGTGACACCTGTTACTCCAGCCAATGTGGTCCAAGGTTTACCTGATCCGTGGGTGTCTCAGATAACAAATACAGATACACTTGCAGCAGTAGCTCAGATCTTACAAAGTCCTCAAGGCCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031917:ENSBTAT00000045257:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.192 A=NA C2=0.273
Domain overlap (PFAM):
C1:
PF048188=CTD_bind=PD(24.2=30.8)
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:
AGTGAGAGTATTAAACTTATGGCAGA
R:
TGTTGGCCTTGAGGACTTTGT
Band lengths:
276-1165
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]