RnoINT0145183 @ rn6
Intron Retention
Gene
ENSRNOG00000027911 | Stkld1
Description
serine/threonine kinase-like domain containing 1 [Source:RGD Symbol;Acc:1307355]
Coordinates
chr3:5498444-5499657:+
Coord C1 exon
chr3:5498444-5498572
Coord A exon
chr3:5498573-5499516
Coord C2 exon
chr3:5499517-5499657
Length
944 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TTCCATGCCTCCCACTCCAGAAC
3' ss Score
7.7
Exon sequences
Seq C1 exon
GCTGCATAAAGGAGGGTCAGTTTGAGCAGGTGGTCGTGCTGCTGCTGAGAAGCATCCAGCTATGTCCTGGCAGAGTACTTCTGGTGAACAATGCACTCCGCGGCTTGGCCAGCCTCGCAAAGGTGTCTG
Seq A exon
GTAAGTCTGAGACAAGCCAGGCTGCCACCTGGAGGTGGAACAAAAGCCAGCTCCCTCCAGTGATGTCCACCTGGTGACCCCAAACTAGAAGAGGAAGCAGCCTCCAGGAAACACCCCTGGGACTTCTCCATGTTTGGTGTCTTAGGTCTACCTGCCCACTAGATTCACATCCCACAGCTGCACAGGTTCCCTACACATAGGTCTGTCTCCAAGTCCAGGCTTATGCCAGGTCTCCCACTAAGCAGCGTCAGTCTTTCTTTGTAGAGAACCCTGGGTCCAGGGTCATGCAATGCTCCCACCCTGGTCTGTCAGGGCTCCAAGGGCTATCTCCTTGGCTTCACTCCTGCTCATTTCTACCCGTGACAGTCTACTGGGCTACTCAAACTAGTGGGGCCTCCTGGAGGGCAGTTGGGAATCTTGTTTCCTAATTTGACCCTGACACCCTTACACAAAGTACCTTGTTTTTTTTTTTTTTTTTTTTTTTGGTTCTTTTTTTTCGGAGCTGGGGACCGAACACAAAGTACCTTGTGAGGGAGGTTTCGGCCCCTCTGAGGTCCAGTTAACTGCTTCAGGGTAGGAGGGCCACCTGCACAGGAGGCTCTTCTCCATAGTGCCACACCAAGGCCTCCATTTCCTTGCAAGGCAGAGGAACATAAGTGCTGTATTTCCCTTGGGCATGGGGCTCATTGCTAACAAGTGCAAAGCTTGTAGAGAAGCAAAGTCGTGCAACCACCTCTTACATTTTACAGAGCAGGAACAGCCCTGACTTAGGAGCTTCCTTCACAGAAGGCAAGGGTTCCTTGCAGAAGAGCTCTCCCAGCAACCTTATGACCAGTCATGCTACTTGCCGGACACTGAGTACAGGGAGCTGAGAAGTAGAGCGGCTGCAAAGGAGCTACACTAGACTCTATTATATACACAAATTTCCATGCCTCCCACTCCAG
Seq C2 exon
AACTGGTGGCCTTCCGAACAGTAGTACTGGAAGAGGGCAGCAGTGGCCTCCACCTCGTCCAAGACATCTACCAGCTCTACAAGGATGACCCTGAGGTGGTGGAGAACATCTGCATGCTGTTGGCCCAACTGGCCTCCTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027911:ENSRNOT00000031316:16
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:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGCATAAAGGAGGGTCAGT
R:
TGTAGGAGGCCAGTTGGG
Band lengths:
270-1214
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]