DreINT0132420 @ danRer10
Intron Retention
Gene
ENSDARG00000004581 | sel1l
Description
sel-1 suppressor of lin-12-like (C. elegans) [Source:ZFIN;Acc:ZDB-GENE-041001-122]
Coordinates
chr20:27093797-27094542:+
Coord C1 exon
chr20:27093797-27093878
Coord A exon
chr20:27093879-27094387
Coord C2 exon
chr20:27094388-27094542
Length
509 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAAT
5' ss Score
7.76
3' ss Seq
ATTTTTTTTCCTTCTGCTAGTGG
3' ss Score
7.78
Exon sequences
Seq C1 exon
GGCTATAGATATTGGGGAGGTGTTGGAGTTCCTCAGAGCTGTGAATCTGCTCTCACTCACTACAGACTAGTGGCCAATCACG
Seq A exon
GTAAATCATGTCACATTTCTGTTCCTCAAATGCAGTCATGATACACATCTAAATATGTGAGTAATTTCAGGACTGCATCTTTTAAAAGAAGTTGTCTGGGTCTCTGGTGTCCACTTGAAAATATTGTATTTCATTACCTAATGTGATCTTGGACGCTATGCCCCCTGACAGTTTAAGGAAATGTTTAGTGACTTAAAAATGATTTTCTGCGATGTATAACACAGTTAATCATTGTGGTTAAAGATTTTGATCATAAAAACCCACATATAATCGATTTCTACTACTGTGATGTTTTCAATGTCAACATTGAACTCCGGGATAATTATGTGCCATATTATTTCAACTGGGCAAATTTGTGTAGGCCTACAATCCCCTATTTTTTCCCACATTGTGTGTTTAGTAAATCCTCTCAGTATTTTTAAATAGGCAAAACGTGAGTTTGCATAATGTCTTGCAATATTGTAGCCTAAGGTGAACTTTTAATAAAACATTTTTTTTCCTTCTGCTAG
Seq C2 exon
TGGCCAGCGACGTGTCTCTGACAGGGGGCAGTGCAGTACAGCGGATCCGGCTCTTAGATGAAGTGGAAAATCCTGGTTCTAGCAGTGGAATGCTAGAAGAGGACCTAATCCAGTACTACCAGTTCTTGGCTGAGAAAGGAGATGTGCAGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004581:ENSDART00000012816:9
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:
NO
A:
NA
C2:
PF082387=Sel1=PU(8.1=5.8)
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:
TAGATATTGGGGAGGTGTTGGAGT
R:
GTGCCTGCACATCTCCTTTCT
Band lengths:
230-739
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]