RnoINT0145181 @ rn6
Intron Retention
Gene
ENSRNOG00000027911 | Stkld1
Description
serine/threonine kinase-like domain containing 1 [Source:RGD Symbol;Acc:1307355]
Coordinates
chr3:5497401-5498372:+
Coord C1 exon
chr3:5497401-5497529
Coord A exon
chr3:5497530-5498243
Coord C2 exon
chr3:5498244-5498372
Length
714 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
CATCTCTGTCCTGGATCTAGTTG
3' ss Score
6.27
Exon sequences
Seq C1 exon
GACAGATCTCAGAGGAGCTAGAAGAGAAGAGATTGTTTGAGCTTGCCCAAAAGCACCTGGAGCGCTTCCAAGAGGACAGGGACATCTGCCTCGGTATCCTGAGCCTGCTCTGGTCCCTCCTGGTAGATG
Seq A exon
GTGAGGCCCTCCTGCATAAGCCCCACTGCATGAGACCTACTAGAGAAGTTCTCAACCTGTGGATCTTAACCGCACAGGAATGAGTTTCACAGGGATCCCCTGAAACTATCAGGAAACACAGAGATTTACATTATAGTTTATAATAGTAGCAAAATTACAATTATGAAGTAGCAACAACAATACTTTTATGGTTGGGGGTCACTGAAACATGAACTGTATCAACGGTTCTAAGTCTGTCATGATGACCAACAGATTAAGAACTGGTGCTTGACAGCTTGTCCCTTACACACAGGAGGGCAATCCCAGGCCCCATGGGGATCCTTGGGGAGCCTAGTTCATGGGCACAGTGAGACACTACTGGGTAAGAAAGAACACTCTGTCCAGAGGTCACCAGAGCATTTGAGGCCCTATCCTGGTTTCCAGGCCTTCTCTTCTAGATACTAACTTGCCAAGGAAAGAGAGCTCCAAGCTATGGCAACCCAAGAATACCACAGAGATCCTGCTAATGCCACTAATGCTAAAGTCCCCATCTCTACTGAGGTCTATTGCAAACTCTGGCAGTGGAAAGCCCCATTTCCCATTTCTGAGGACACCTGTCCCCTTGATTCTCCTCTGTTGTTCTTGGTGAGAGGGGGCAGTGTAGAGGGGCACATATACAGCAGGTACTTCTGTTCATTCCTGGTTTGGCGTCCCCCATCTCTGTCCTGGATCTAG
Seq C2 exon
TTGACACTGTGAACAAAGAGCCCTTGGAGAACCTCTCAGTCTCAGTCACCTGGGTGCTGGCTTTTCATCAAGAGGACATGGAAGTAACAGAGGCTGGCTGCGCAGTGCTCTGGCTTCTGTCCTTGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027911:ENSRNOT00000031316:14
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
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAGATCTCAGAGGAGCTAGA
R:
CAAGGACAGAAGCCAGAGCAC
Band lengths:
254-968
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]