DreINT0130944 @ danRer10
Intron Retention
Gene
ENSDARG00000062968 | sbf1
Description
SET binding factor 1 [Source:ZFIN;Acc:ZDB-GENE-040718-139]
Coordinates
chr4:9987290-9987683:+
Coord C1 exon
chr4:9987290-9987466
Coord A exon
chr4:9987467-9987581
Coord C2 exon
chr4:9987582-9987683
Length
115 bp
Sequences
Splice sites
5' ss Seq
CTGGTACCA
5' ss Score
2.73
3' ss Seq
TTCTGTGTGTCCCATCACAGCTT
3' ss Score
8.03
Exon sequences
Seq C1 exon
GGTGGAAAGCAGGACTCCTTCCAGCAGTGGGAGGTGGTGCCCATCGAGGTCTTCGACGTACGGCAGGTGAAGAACAGTTTCAAGAAGCTGATGAAAGCCTGTGTGCCTTCCTCCCTAAGCTTTGACGCAAACATGACCTTTCACCGCTGCCTGGAGGAGTCCGAGTGGATGAATCTG
Seq A exon
GTACCAATCCCTAGCTTTTATCCATTCTAAAATTGTTCAACTCAATGTGCTAGTCAGTAATAAGATAGTGGAATCATTTTTGACATTGACTATGTTTCTGTGTGTCCCATCACAG
Seq C2 exon
CTTCACAGGGTTTTACAGGTGTCTGTTCTTGTTGTGGAGCTTCTTGACAATGGTTCCTCGGTCATGGTTAGTTTGGAGGACGGCTGGGATGTAACAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062968:ENSDART00000109452:30
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(13.5=100)
A:
NA
C2:
PF066029=Myotub-related=FE(7.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGAAAGCAGGACTCCTTCC
R:
CCATGACCGAGGAACCATTGT
Band lengths:
243-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]