DreINT0130983 @ danRer10
Intron Retention
Gene
ENSDARG00000059460 | sbf2
Description
SET binding factor 2 [Source:ZFIN;Acc:ZDB-GENE-030911-10]
Coordinates
chr7:66912478-66913343:+
Coord C1 exon
chr7:66912478-66912552
Coord A exon
chr7:66912553-66913164
Coord C2 exon
chr7:66913165-66913343
Length
612 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCG
5' ss Score
8.7
3' ss Seq
CTCTCTCTCTCTCTCTATAGGTG
3' ss Score
15.25
Exon sequences
Seq C1 exon
TACTCGGGTACAGGGATAAACTTTTCACTCACTCAAACCAAAAAGCTTCAGCTAAGGGAAGAATTCACAATCAAG
Seq A exon
GTATCGTTTCTGTTTACTCATTCACACTAACCTGATCCATACTTGACTGACCTTTTCTCTGCATCTCTTTGACCTCCATCCATATAACCACAAGCGAGCTTACCAGCAGCTTTATTCTGCTCTACGTCAGATTTTTGTAGTAATTTTTGTAGTTCATATACACTGAAAATAAAAAGATTCATTAGATTTACTAAAAAGAAGATTAAGGTAAGTGTTTGCAAACAATTTATATGTGCAAACTAATTAAGCTGAACATTACCTAAATTAATTTGTTTAAATTCAGCTTATACGCTGTACATTTACCGGCCACTTTATTAGGTACATCTTACCGGGTTGGACCCACTTTTGCTTTCAGGACTTTGTGGCATAGATTCCATGTTCGATATATTACAGCACTTTGTTCTCCTAAAGTTATTTTTGTAATCCTTCCTAACCTATGTTCACACTCACACATGCACACACATTTGTATCCCTCTGTGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTATAG
Seq C2 exon
GTGTGTGGGCTAGTCTGCGCTCCAGCAGCAGATTCATCCAGCATCCCGCTGTAGGCGACGTGGGCGCGCGGTTAGCTGGCAAGGATCTGGCGCCCCCTACAGGCATTGAGAACCTGCAGGCTCAACTCCTTAAGCATCAAGCCGCTCTTTACATCTTTGGCGAAAAGTCTCACTTTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059460:ENSDART00000082664:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.115 A=NA C2=0.033
Domain overlap (PFAM):
C1:
PF066029=Myotub-related=FE(5.2=100)
A:
NA
C2:
PF066029=Myotub-related=FE(12.2=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:
ACTCGGGTACAGGGATAAACT
R:
AGTGAGACTTTTCGCCAAAGATGT
Band lengths:
248-860
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]