DreINT0130933 @ danRer10
Intron Retention
Gene
ENSDARG00000062968 | sbf1
Description
SET binding factor 1 [Source:ZFIN;Acc:ZDB-GENE-040718-139]
Coordinates
chr4:9973777-9974402:+
Coord C1 exon
chr4:9973777-9973949
Coord A exon
chr4:9973950-9974328
Coord C2 exon
chr4:9974329-9974402
Length
379 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TGTTCCCGTTTGTCTTTCAGACA
3' ss Score
11.04
Exon sequences
Seq C1 exon
TATTGCGGGCAGCATGGCAGAAAGCTACGACACCGAGAGCGGCTTCGAGGATGCCGAGAGCTCAGATGTTGCAAACTCCGTTGTTCGTTTCATCAACCGATTTGTTGACAAAGTGTGTAACGAGAGCGGCGTCACCAACGAACACCTAAAAGCCCTCCACACAATGATACCAG
Seq A exon
GTAAAACTCCTTTCTTATTTTTTTAATTATTAGCCCTTATATAAAATTATATATTTTTTGGTGCTGTATAAGAGAGAAGATTTTTTAAAATACACATTTAAAAAAAAAAGTTTTAATATGTGACATATCTGTACAATAGTGTTTTTTCTGTAGCCAATTACAAAAAAAAGTTTTTTAGTTAAAATGTATTATTAAAACTGTCTTTATTTTGGCCAAAATAAAATAAGTAAAATAATTAAATAAAGTAAATATAATTTAATTATATCTATTTAAAAATAAAAAAAAAGAATTACAATTTATTTGGCGGACTCATAATTTGGACTTCAACTGTACATTAAGTTTTTTCTTAACTTTTTTAATGTTCCCGTTTGTCTTTCAG
Seq C2 exon
ACATCGTTCAGATGCACATCGAGACGCTGGACGCGGTTCACAGGGAGAGCAAACGTCTGCCGCCCATCCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062968:ENSDART00000109452:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.203 A=NA C2=0.200
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCATGGCAGAAAGCTACGA
R:
CTTTTGGATGGGCGGCAGAC
Band lengths:
238-617
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]