BtaINT0131652 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000098 | SETDB1
Description
SET domain, bifurcated 1 [Source:HGNC Symbol;Acc:HGNC:10761]
Coordinates
chr3:19853242-19854569:-
Coord C1 exon
chr3:19853946-19854569
Coord A exon
chr3:19853359-19853945
Coord C2 exon
chr3:19853242-19853358
Length
587 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TACTCTTCTGTTTTATGCAGGTC
3' ss Score
9.68
Exon sequences
Seq C1 exon
GTCACCTTTAGGCTCCACAACCTCTGCCCCAGCACCCCCAGCTCCCCCAGCACCCCCAGCCTTCCATGGCATGCTGGAGCGGGCCCCTGCAGAGCCCTCCTACCGTGCCCCCATGGAGAAGCTTTTCTACTTACCTCATGTCTGCAGCTATACTTGTCTGTCTCGAGTCAGACCTATGAGAAGTGAGCAGTATCGGGGCAAGAACCCTCTGTTAGTCCCACTACTCTATGACTTTCGGCGAATGACAGCCCGGCGCCGAGTAAACCGCAAGATGGGCTTTCATGTTATCTATAAGACACCCTGTGGCCTCTGCCTTCGGACAATGCAGGAGATTGAGCGTTACCTTTTTGAGACTGGCTGTGACTTCCTCTTCCTGGAGATGTTCTGTTTGGATCCATATGTTCTTGTGGACCGAAAGTTTCAGCCCTATAAGCCTTTTTACTATATTTTGGACATCACCTATGGGAAGGAAGACGTTCCTCTATCCTGCGTTAACGAGATTGACACGACTCCCCCACCTCAGGTGGCCTACAGCAAGGAACGGATCCCGGGCAAGGGTGTTTTCATTAACACAGGCCCTGAGTTTCTTGTCGGCTGTGACTGCAAAGATGGGTGCCGGGACAA
Seq A exon
GTGAGTTGCTTAGGGAATTGTGGCCCTGCCTCCAACTTTGTTGTGGTTTCCTGTATTTCCACCACTTTCTTTGCCTTATACTGCACTTCTCCTTGCCTCACCTTCCTTGATCTGCTTTCTTAGCTGTAGCTCCTTCTATAAGGCCTCCAGAGAGGCTGGGACCCCACAGCATAATCCTGGGTACATGTTTAGATAGCATCACGACTCATTGGACATAAACTTGAGCAAACTCCAAGAGATAGTGGAGGACAGGGAAGCCCAGTGTGCTGCAGTCCATGGGATCACAAAGGGTCAGACGCAACTTAGCAACTGAACAGCAACACATGTGTCTTATGTTTGTTTTTTCCTCTGATTCTCCTTTTCCTTTGCTTCCCCCCATCATGCATTCAGTTGCTAGTTGTTATTCTGTGTCTCTTTATCTTACTCTTACTCTGTCATATTCCTACTGTCCTTTCCTTTCTCATTTACACATATGGGAGAAGAAAAAGAAATGTTACTACCTTGTCACCCTCCTTTTCTCAGTAGTACTTCTCGCCTCTGAAGAAAGTCCCCCAGCTCTAGTAGTTGTACTCTTCTGTTTTATGCAG
Seq C2 exon
GTCCAAGTGTGCCTGCCATCAGCTAACTATCCAGGCTACAGCCTGCACCCCAGGAGGCCAAATCAACCCCAACTCTGGCTACCAATACAAGAGACTAGAAGAATGTCTGCCCACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000098:ENSBTAT00000000107:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.158 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0142914=MBD=WD(100=35.9),PF0503311=Pre-SET=PU(49.6=27.3)
A:
NA
C2:
PF0503311=Pre-SET=FE(33.9=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:
TGGCTGTGACTTCCTCTTCCT
R:
ATTGGTAGCCAGAGTTGGGGT
Band lengths:
356-943
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]