RnoINT0145187 @ rn6
Intron Retention
Gene
ENSRNOG00000027911 | Stkld1
Description
serine/threonine kinase-like domain containing 1 [Source:RGD Symbol;Acc:1307355]
Coordinates
chr3:5485296-5487671:+
Coord C1 exon
chr3:5485296-5485340
Coord A exon
chr3:5485341-5487596
Coord C2 exon
chr3:5487597-5487671
Length
2256 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATG
5' ss Score
8.73
3' ss Seq
TCTGCTCCCTCTCTGTACAGCTG
3' ss Score
11.71
Exon sequences
Seq C1 exon
GTAGAGTGTATTGATGAGCACCATGCCAACAAGGCCCTGGAGGAG
Seq A exon
GTAATGATCAGTGGTTCTCCTGGGACAGTCAGTGCTCAGCAAATACAGGAACTGGATTTCGTGCCCACCTGCTGAGTGACTGGGTGAAGTCACTTGCATGCAGTAAAGGAGTCCACATTTCCGGGACATCCATTTCTTAGTTACCACTTGGGACATCGTTCCCCTAATGGCTACTCTACTACTGACCATCTTTTAAGTCTTTATTTTTTTATTATTGTTCGAGGAGGACAAAATCCACCTTGCACAGCCATGTGTGGTGATCAGAGGACAACTTTGAGGGGTCAGTTCTCTCTTCCCATCTTTTTGTGTGTTCTGGAGGTCAAACCGAGACTGTCATGTTTTCTTTTCTTTTCCTATTTGTTTGATTATCAAAACAGGATGTCACTATGTAGCTCTTGCTAGAACTTACTCTTGCATTCCAAGCTGGCCTCAAACTCAGAGACCTGTCTGCTCTGCTTCCTCCTGAGTGCTAGGATTAACGGCATGCGCCACCACAGCTGGCTTGACCACCAAGTTTTGTTTTTTTTTTTTTTAAATATTTATTTATTTATTTTTCATGTATGTGAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGACCACCGAGTTTTTATTTAAAGCAAGCATTTTAACCCACCGAGCCATCTTGTCGACTCCCCATCTTTTTAAAAACAGGCCTTGTTTTCCTTACATTTGTTTAGCGTATACGCACATGTACACATGCATGACTCGTGCCACATGTAGGGAGGTCAGAAGACAGCTTTGGAGAGATGGCTTTCTCCTCGTGCCTTTACCCACCGACCCATCTCACATTTTCTGAAGTTGTTTTTTTTTTCATCAGACTTGGGGCTGTACCTCAGTGGTGAGCATGGGCCTCAAATTGCTCAGCGCTCTGGGTTCTATCTCCATCACTGGAAAAAAATGTTTTTCTTCTAGTTATAAAAGAAGAACAGTACAGAGCTTGGGAGACACAAAGAAAATGTTTAGAAAGAAAATTAAGTTAATCAGTTAGTTGAATGCGCCAATGCTCACTTGAAGTCCCAGCATTGACTGGATCTTGAGTTTGAGGCCAGCCTGGATGGCACTGTGAGATTCTGACTCAAGAGAGGAAGGGCTGAGATGTGGCTCTGTGGTAAAGCACCAGCCTCAAACACACAGGCCCTGGACTTGGTTCTCAGCATAGAATAGAAGAAAAGGAGAGAGGGAGAACAGGAGAGATGAGAGAGTCAGGGAAGGGTGAGAGGGTTGAAAATTGCCTTCACAGAGCCACAGGTAACTGCAGTTACCAGCTTGATAGATAGCAGCTAGGAGCCATTTCTTTGGGCCTCTCCAGAAATTTCATCTGAGTGAAAGGTGACTTCTCCTCCATAAATGGTCCCTTTAGGGTTGGCTTCCTTCTGGAGTGGCCTGCCCTTGCACATCACCAGTCAGCATGTCTTGTGTCACGCACAGTGTCACTGGAGCAGAAGTAGACCTTGTGTCACACACAGCGTCACTGGGGCAGAAGTCTGACGTGTGGGAAGAGCATGGGTGATTCCGCCCTCACACAGCCATGTGGTCCATTCCCATTCATGCCTGCCAGGCCAGGTGTTTCCCCACCCAGCTTCCAATCAAAGCAATGGTCCATCTGGCCACAGTGTTCAGGCAGCCATTGCTGCAGCCTGACTGGATTTATTTATCTTAAGTACTTCACTATGCCTTTGGACACAGCATCTTTTCCAGCCCAGCCTGACAGTCTCCGAGCACCCTCTGGGTCTGCACCAGTTCACTGGGGGTTGGAGGTCATGCTGGTTATCAAATCCAAGGCTCTATGCATGCTAGAAAAGGGCTCTAGGGGTTGGGGATTTAGCTCAGTGGTAGAGCACTTGCCTAGCAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCTAAAAATAGAAAAAGAAAAAAAAAAAAGAAAAAAAAGAAAAGGGCTCTATTCTTGAGCTTACCTTACAGCTTGTTACCATTTTCATATGTGCTTGTGGGGCTCAGAAAAGTTGAAGAACAAGTCTTGGTCACAAAGCCCGATCACCCCATTCTGGAGACCCACACCAGCCTCCTGGTCTCTCCCCAGCAGACTACGCAGCTTCCTTTCCCCCACGCCATGCCCTGCCCAGAGCCCTTATCTCATCTCTTGGTTGGAGTATGTAGCAGAGCAGTACTGACTGAGACACTCTGCTCCCTCTCTGTACAG
Seq C2 exon
CTGATGCCCCTGATGAAGCTCCAGCACTCCAACATCTCTGTGTACCATGAGATGTTCATCATGTGGGACAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027911:ENSRNOT00000031316:3
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:
PF0006920=Pkinase=FE(5.2=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.9=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]