GgaINT0115141 @ galGal3
Intron Retention
Gene
ENSGALG00000012438 | SBF1
Description
NA
Coordinates
chr1:454495-455604:+
Coord C1 exon
chr1:454495-454702
Coord A exon
chr1:454703-455343
Coord C2 exon
chr1:455344-455604
Length
641 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
AGCTCAGCTCTCTCCTGCAGTTA
3' ss Score
6.4
Exon sequences
Seq C1 exon
TGTCCGAGGAGATGGACAGGAGCACTTTGACCCCCACCACGACCATCAGACCCTCGGAGAAGATGACCATCAACCACCTGGTGGAGCGAGCCTGCTGCCGTGACTACCAGCGCCTGGGGTTGGGCACACTCAGCAGCAGCCTCACACGTTCCAAGAACGAACCCTTCCGCATCTCCACGGTGAACCGCATGTACGCCATTTGTCGGAG
Seq A exon
GTGAGCCCAACCAGGAGTCAGGAGAGCCTGTGCTGGTGGCCAAGGTGGCCAGCAGGGTCCTGGTTGACCAGTAGTTGACCAGTGGTTGACCAATGATTGACCAGTAGTTGACCAGTAGTTGACCAATAGTTGACCAAAAGTTGACCAATGGTTGAGCAACAGTTGACCAAAAGTTGACCAAAAGTTGACCATGAGCTGTCTACATGCCGTGGCAGCCTAAAAGGCCGATGGGACTCTGGAGTGCATTGCAAAGAGCTGCTTGGAAGGAGCTCTGTAGAGGACTTGGGTGTCCTGGTGGCCAACGGTTGACCAATGGTTGACTACATGTTGACCATGAGCCAGCAGTGTGCCCTGGCAGCCCAAAAGGCCGATGTGACTCTGGAGTGCATTGCAAAGAGCTGCTTGGAAGGAGCTCTGTGGAGGACTTGGGTGTCCTGGTGGCCAGCGGTTGACCAATGGTTGACCAAATGTTGACCATGAGCCAGCAGTGTGCCCTGGCTGGCCAAAAGGCCAATGGGACCCCGGGGCGTGCTGCGGAGCATGGCCAGCGGGGCAAGGAGGTTCACCTCCCCTCTGCTCTGCCCTGGCGAGGGCACAGGTGTGCTCAGCACTGCTCCCTGCAGCTCAGCTCTCTCCTGCAG
Seq C2 exon
TTACCCCGGGCTGCTCATCGTGCCGCAGAGCATCCAGGACAACACCATCCAACGCATCTCCCGCTGTTACCGCCAGAACCGCTTCCCCGTGGTGTGCTGGCGCAACTCCCGCACCAAAGCCGTGCTGCTGCGCTCCGGGGGGCTGCACGGGAAGGGCGTCGTGGGCCTCTTCAAGTCACAGAACGCTCCCACTGCAGGTACCCATCCCCTCACCCCATCCTGGAGCGGTGCCCCATCCCTTCCCGCTGCCCCGGCCGCGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012438:ENSGALT00000020337:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.321 A=NA C2=0.241
Domain overlap (PFAM):
C1:
PF066029=Myotub-related=PU(15.0=91.4)
A:
NA
C2:
PF066029=Myotub-related=FE(20.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCATCAGACCCTCGGAGAAG
R:
TCTGTGACTTGAAGAGGCCCA
Band lengths:
349-990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]