DreINT0148150 @ danRer10
Intron Retention
Gene
ENSDARG00000100953 | si:dkeyp-93a5.2
Description
si:dkeyp-93a5.2 [Source:ZFIN;Acc:ZDB-GENE-131127-18]
Coordinates
chr25:24998757-24999555:+
Coord C1 exon
chr25:24998757-24999204
Coord A exon
chr25:24999205-24999365
Coord C2 exon
chr25:24999366-24999555
Length
161 bp
Sequences
Splice sites
5' ss Seq
TATGTATGA
5' ss Score
-0.16
3' ss Seq
AATTTAATCTTTCTTTATAGGGG
3' ss Score
9.02
Exon sequences
Seq C1 exon
TAAAACCACATCCAGCATGCATGTGTACTTGGGAAAGTGGAGACGTTATGAAACTGACCAAAATGAAATCACCAGAACTGTCATAGACATCATTCCACATCCCTCCTACAATAACAGAACTTCTGATAATGACATCGCTCTGCTGCAGCTGTCAGCTACAGTTCAATATACTGTCTACATTAAACCCATATGTCTAGCAGATCAAAACAGCAACTTCCCTCGTGGGACCAGGAGCTGGGTCACAGGCTGGGGGCGTATTGGCGTTTCGGGCACAGGTGGTATAAGCGGCAGAACCACAGTGTCTGTGCCTTTACCTGCTCCTGGGATTCTGCAAGAGGTTGAGCTTCAAGTGTACAGTAATGAAAAATGCAGTAAACGTTGTCAGGGACCCATCACCCCCAACATGATTTGTGCTGGTACACGAAGTGGAGGCAAAGGAACCTTTTAT
Seq A exon
GTATGACGATCAATGAGATTGTTCTAATCAAGACTTTTACTCTACTTTATAGATTAAATAGATTATACTTTATATTCCACCAAGACTGACTGTATGTGGTCTTTATAATTCAAATACAATAAACTAAATCAGTACCTAAATAATTTAATCTTTCTTTATAG
Seq C2 exon
GGGGACTCTGGTGGTCCACTGATGAGTAAGCAGTGTTCAGTGTGGGTTCAGGCTGGTGTTGTCAGTCATGGGTATGGATGTGCACAGCCCAAGATTCCTGGTGTGTTCATTCGCGTCTCAGAGTATAAACAATGGATTACAGACAATATTGGTGGAAACCTGCCTGGATTTGTCCTCTTTGATCCAACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100953:ENSDART00000104453:3
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:
PF0008921=Trypsin=FE(62.1=100)
A:
NA
C2:
PF0008921=Trypsin=PD(18.8=70.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTCCTGGGATTCTGCAAG
R:
GAGACGCGAATGAACACACCA
Band lengths:
253-414
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]