RnoINT0078739 @ rn6
Intron Retention
Gene
ENSRNOG00000047628 | Khsrp
Description
KH-type splicing regulatory protein [Source:RGD Symbol;Acc:621828]
Coordinates
chr9:10021722-10022924:+
Coord C1 exon
chr9:10021722-10021882
Coord A exon
chr9:10021883-10022870
Coord C2 exon
chr9:10022871-10022924
Length
988 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
CTGTCTCTCCCTCTCTGCAGGCA
3' ss Score
13.51
Exon sequences
Seq C1 exon
CACAAGTGGCCACTGGTGGGGGTCCTGGAGCACCCCCTGGCTCCCAGCCTGACTACAGTGCCGCCTGGGCTGAGTATTACAGACAGCAGGCTGCTTACTACGGACAGACCCCAGGCCCTGGTGGCCCACAGCCACCTCCCACCCAGCAGGGACAGCAGCAG
Seq A exon
GCAAGTGGGAACTGCCACCCTCCTCCTCCTCCTTTCTCCTTCCAACCCCCGGCCACCGTCCATCCTGCCTTAGTGGGTAGCGCCGGAAACCCTTTCCCCTGCGGGGTGTGCCCTTGATGCCAGCCTCGGGCTCGTGGCCAGAGTCTCCCAGAGCCCCGCAGCCCCGCCGCTGGGAAGCGCTCGATGGGTGCAGAGGCTCACTGAAGAGGCTTCTCCGGTAGCCACTGTTGGTGCGACGTTGTCGGGTGCTGGGGGCACCGGCCGCAAAGGTGGAACTCTGAACTGCTGGGGTGTCCCGGGTGGGGGCAGGAAGTGGGGACTGTGCTGGGTACCATGCCGGTTGCTGAACCCGCTCGCTCAAAATCTGGCCACTTGGGAAGAAAATGTCTATTTTTTTTCCCCGTCTCAGCATCACTATTTTGGGTTTTGTTCTTTTTTATTCTTTTTTTTTTTTTTTTTTTTTTAAGCCACCATCTTTATATCCCCCATGTTCAAGTAATTGCGTGTTGCAGGCGGCCCTGGCTCTGCTGGGATGTGAGGGGAGCCCACTGGGCCCTCCTGTCTGGCGAGGCCACCTCTGGTGTGCTTGCCTCTGTGTCCCGGTCTTGTCTGTGAAGTGGGCATGACGATAGTTGCCACCTTCCAACCTACCTCACAGGGGTGTTGTGGGGACACCATGGTCTGAATGTTGTGACGCCCAGCCGCCGCCTCCCTCCTCTGTCCCCCTCCCTCCTGGCACTTCTCCCGTGTGCCCTCTTCCACACCTCTGGCTTCTGCTGCAGACTCCTCCTCCTCTTCCTCCTCCTTTCTCCTGTTTCTCCACCAAGGAGCAGTCTGACTAGTGGAGTCCCCAAGACAGACAGTCACAGCCCCCTGCTTAGCCTGTGGGGGCTTGGGCTCGGCCTCTTGGCCCACTGCCTGGAGTCGCAGCCTCTTGTAGCCAGGCCGCCCTCCTGCCATGACCATTCCTGTCTCTCCCTCTCTGCAG
Seq C2 exon
GCAACTGAAGCAAATGGATATGAACTTCATCTGTGAAAATATTTTTTCCCTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047628:ENSRNOT00000072033:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.858 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF090055=DUF1897=WD(100=55.6)
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGGTGGGGGTCCTGG
R:
TTTTCACAGATGAAGTTCATATCCAT
Band lengths:
190-1178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]