DreINT0130985 @ danRer10
Intron Retention
Gene
ENSDARG00000059460 | sbf2
Description
SET binding factor 2 [Source:ZFIN;Acc:ZDB-GENE-030911-10]
Coordinates
chr7:66917234-66918139:+
Coord C1 exon
chr7:66917234-66917410
Coord A exon
chr7:66917411-66918037
Coord C2 exon
chr7:66918038-66918139
Length
627 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGC
5' ss Score
4.9
3' ss Seq
TGTGTGTGTGTGTTTCACAGATA
3' ss Score
11.73
Exon sequences
Seq C1 exon
GGCTTAAAATTGGACCCAGCGCTGAATTGTGAGCTGGTGCCGGTGGAGTTTGCAGACACGAGACAGGTGAAAGCCTCCTTCAAGAAGCTTCTGAGGGCGTGTGCACCCAGCGCCATGTCTTCAGACACAGAGGACTCCTTCCTGAAGGCTCTGGAGGAGAGCGAGTGGATGCTGCAG
Seq A exon
GTTAGCGGGACATTTATCACATACAGCTTCTACATCATTCGGTAACACTTTCCTTGAAGAGTTGTTCACCTTTATAATTAAAGCTATGATCAGTCTCGAAATCCCTTATTGATTCAGTGTCATAGTATGATCTTTGAACGCACATTCCTCAAACATCTGCATGTTAACCTTAGTGTGACTCAGTGGCCCAAATATTGCAAATCCACCGGCAGCGATGTGGAAAAAACAGAAACACGCTGGCCTGTGTGAATTTGACCCTGCCTTCCTCAAAACCACTCACCCCTGGGAAAAACTGCACAACACAAAGATGGGAAAAATGGCACAGCGCAATTATAGCAAAACAAAGTCGCTTACTATGCTAAAAGTCATGCACTCGCAAAACCTCTTGGCCTTAAGCTGCACCGTGTCTCAGACTCTAGAACAATATTATCTGGAAGGATCCTGGCCAAGACACTCGGAGAGCTCTTAGTCAGCTCTTATACAGCATTACAATAAATGTACAGGAACTGCTAAACTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTCACAG
Seq C2 exon
ATACACAAGCTGCTGCAGCTGGCTGTGGTGGCAGTGGAGTTGCTGGACAGCGGATCATCTGTACTAGTTAGTCTTGAAGAGGGCTGGGACATCACCACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059460:ENSDART00000082664:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF066029=Myotub-related=FE(12.0=100)
A:
NA
C2:
PF066029=Myotub-related=FE(6.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTAAAATTGGACCCAGCGC
R:
CTGAGTGGTGATGTCCCAGC
Band lengths:
278-905
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]