DreINT0158583 @ danRer10
Intron Retention
Gene
ENSDARG00000003592 | surf1
Description
surfeit 1 [Source:ZFIN;Acc:ZDB-GENE-041108-2]
Coordinates
chr5:32682562-32683083:+
Coord C1 exon
chr5:32682562-32682634
Coord A exon
chr5:32682635-32682920
Coord C2 exon
chr5:32682921-32683083
Length
286 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
GAGTTTATATTTTATAAAAGGTG
3' ss Score
3.87
Exon sequences
Seq C1 exon
GATCACTATCTTGGTGAACAGAGGTTATGTACCCAAAAACAAGATCAAACCAGAAACCAGGACGAAAGGACAG
Seq A exon
GTAATATAGTGCTTTTCTTAATTTATTTTTAGATCAAATCTAGGCGTAAATATTGCCAATTAATTTTTTTTCTTTGTTAGTCCAAACTGGCTTATATACACACAAGGTTATGCAAATTAGCAGTCAGATGTAACATTTAAAAAAAACAAAAAAAACAAAAACATGAATTTTGTATTTACTAATGAAATCTATCAACTGGTGACATATGGACACTTCACATGCAGTGTATACCCTTAATTCTTGACTTTTTAATGCTCTTATTGGTTGAGTTTATATTTTATAAAAG
Seq C2 exon
GTGATTGAGGATGTGGATCTTGTTGGTGTTGTGCGTTTAACTGAACAACGGAAACCATTTGTCCCTGAAAACAATGTGGAGGCAAACAGATGGCACTATCGTGACCTGGAGGCCATGGCTAAGGTCACTGGTGCCGAAGAGATCTTCATTGATGCTGTGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000003592:ENSDART00000011337:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.120 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0210410=SURF1=FE(11.0=100)
A:
NA
C2:
PF0210410=SURF1=FE(24.7=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:
GATCACTATCTTGGTGAACAGAGGT
R:
CAAGCACAGCATCAATGAAGA
Band lengths:
236-522
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]