DreINT0158585 @ danRer10
Intron Retention
Gene
ENSDARG00000003592 | surf1
Description
surfeit 1 [Source:ZFIN;Acc:ZDB-GENE-041108-2]
Coordinates
chr5:32683214-32683565:+
Coord C1 exon
chr5:32683214-32683295
Coord A exon
chr5:32683296-32683433
Coord C2 exon
chr5:32683434-32683565
Length
138 bp
Sequences
Splice sites
5' ss Seq
ATGGTTTGT
5' ss Score
4.88
3' ss Seq
TGTTTTTGTTTTTCTCCCAGGTA
3' ss Score
10.74
Exon sequences
Seq C1 exon
ATAGCACAGTACCTGGTGGGCCAATAGGAGGGCAGACAAGAGTGACCTTGAGGAATGAACACCTGCAATACGTCATCACATG
Seq A exon
GTTTGTTAAACTCAATCTAACCCATTTTCTTATAGAAAATGTTACTTCTTATTAAGTCTATTTTATTTATATATACCCTTGCTCTCAAAAAATTGCTTTAATCCTAAAGATAACATACTGTTTTTGTTTTTCTCCCAG
Seq C2 exon
GTATGGACTGTGTGCTGCTACTTCCTACATGTGGTATGCAAAATTCATCAAGCGTATTGCTTTATGAAAAATATTCAGGATTTTGCCCTTTTTGAATGCTGTAAAATAAAAACTATTTTATGTTAAACTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000003592:ENSDART00000011337:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0210410=SURF1=FE(12.3=100)
A:
NA
C2:
PF0210410=SURF1=PD(2.7=26.1)
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:
ATAGCACAGTACCTGGTGGGC
R:
TTACAGCATTCAAAAAGGGCAA
Band lengths:
186-324
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]