GgaINT0115143 @ galGal3
Intron Retention
Gene
ENSGALG00000012438 | SBF1
Description
NA
Coordinates
chr1:456382-458327:+
Coord C1 exon
chr1:456382-456431
Coord A exon
chr1:456432-458142
Coord C2 exon
chr1:458143-458327
Length
1711 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGACAGCAGCTGTCCTGCAGGCA
3' ss Score
1.45
Exon sequences
Seq C1 exon
CGGGCGCAACACGCTCAGGGGCTTCACCTCTGCTCACATGAGCAGTGCAG
Seq A exon
GTGAGCGGGGTCGGCTCGGGGGCTGCGGGAGGCTCCTGCCCAGGGACCCCCGAGGTCCGGTGCGTCCCAGAGCCAGAGCTGNTGGGTCTCACGTCCATGGAAGCAGCTCTGTGGAGCACCTCCCCAGGGCCGGAGGTGGGGATGGGGTTTGGGGAACCCGTTGGCCCTACATCTGGGAGCTCCAGGTTGAATCCTGATCCAGGAGGGGGGTGGGCTGGGATGGGGCAGACCCCGAAGCCAAGCTCTTGCACCCAAGCAGCAGCACAGGGTCTGGCGCAGGATGCTGCGGTAAGTGCGTGTCCTGTGCTGAGTGGCTCCATTGTCATCCATTGTCTGTCCCTGCCATCCCACCCCATCATTGCTGCACTGAGGCCAAAGGGATCGTGGGAGCACCTGGCAAGGGGCTCCCTGCTGCAGGAAGGAAGGGAGTTGCGGTCACGGAGGGATGGTGCTGGGGTTTGGAGAAGCTAAAAGGGTGGTGCACCTGGTCCAAAGTGCCTGCACAGTGCTGGGGCAGAGCTGCTGGGGCAGAACTGCTGGGTCAGAGCTGCTGGGGCAGAATTGCTGGGGCAGAGCTGCTGGTGCTGTGCTCTCTGGGTGCTGTTGTGCTGTAGCTCCTGCTTGGTGACCCCCGGTGCAGCCCCGCGCCGTCCCGCTTGCCGCTGGGTTCTTTCCGTGCCCCTTCCCCTCTGAACTGAGGGGAAGCACAGCAAGGAGGGTCCCGCAAGCACGCAGGCTGGGAGCTGACGTTCTGTTGGTGCTGCAGATTTCTCCGACAAGAGGCAGCCTAAGCTGGGATCGCTCATGAAGCAGGTGATGGGAGGGAAGGACGAAGGGCCCGGGACTATTAGCCGTGGAGGTGAGGACGTGCGGGCGAGCGCTGCCTCCCGGGCAGCAGCTGTAGAGTAGATGCTCCCCCCTGTGCTCCCCCAGAGCTCTGGAGTGTGGGGCAGCTTCAAGGCGGGCGGGAGGGACCGTCTGCAGTCCCCATGTGCCCCTTATCGTCCCGTTCCTACGTGCCATCTCCATCCCATGCCCATCTCCATCTCACCACCCCCCNNNNNNNNNNATCCCATGCCCATCTCCATCTCACCACCCCCCTCCCTTCCACCCGTACCCACCCAGCGAGGCAACGGTTGGTCCCTCTCCTCTCCACCCCTCTCTGAGGCCGCTTTCATCCTGTGCCCCCAGGGCTGGGTCACAGAGCCAGGGTCATCACCCTGTCCACCCCCAAGTGCGTGTCGCCGAAGGGCCGCGAGTCGCCCCGAGGTAGGGTCCCGCCGGGCACTTAACCCCACCGGCTGCTAACCCACCGACTGACCCACAACCCCCCCCACCCCACACACACCACTAACCCCCAGTAACACCATAACTGCACCACCCGAGCACGGTGCCGGCGGTAAGTACTGCACCGCACCGCCCCGCAGGTTTGCTTTGGGCTCTGCACACTTCTGCTGGGGGTGGCGGTGGCGGAGGAGAGGGGGCTGGCTGCAGGGCACAGCGTCAGCACGGGGCACTCCCTGCACAGGGCAGCACCCAGCAGAGAGAGGGGCGAAAGCAAACCTGCACCAAACCTCGCATGCATCCCGTGGGTGCCGGCGTGTGGTTGGAGTGTTTGGCCATCACTTCCCACGGAGAGCTGCTCGCCCATCCGGGCGGCCCCGAGCCCCCCGTGCATGGGACCCCCCCAGTGACAGCAGCTGTCCTGCAG
Seq C2 exon
GCAAATGGGGCAGCATCCGTGCCAGCGGGCGCATGAGCAGCTATGCCCTGAATGTGGAGATTGGCTCACGGCTGGCTGGGAAGGACCTGCTGGGTGCCCAGCACAACGGTGCGCCCGCCGAGGCCAGCTTCCTGCGTCAGCACCGCGCCTCGCTCTACATCATTGGGGACAAGTCACAGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012438:ENSGALT00000020337:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.375 A=NA C2=0.056
Domain overlap (PFAM):
C1:
PF066029=Myotub-related=FE(4.0=100)
A:
NA
C2:
PF066029=Myotub-related=FE(14.3=100)
Main Inclusion Isoform:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACACGCTCAGGGGCTTC
R:
CTTCAGCTGTGACTTGTCCCC
Band lengths:
229-1940
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]