RnoINT0078140 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56770684-56771802:-
Coord C1 exon
chr4:56771626-56771802
Coord A exon
chr4:56770770-56771625
Coord C2 exon
chr4:56770684-56770769
Length
856 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGA
5' ss Score
6.45
3' ss Seq
TGCACTATCCATTTTGCCAGGAT
3' ss Score
5.81
Exon sequences
Seq C1 exon
GCTGTGAGTATTTGGGGGTATCCTATCTGAACAGCCAGGAGTTCCCAGACCCCCGGGAAGCCTGCAACCTGTGCACCTGCCTTGGAGGCTTTGTGACTTGCACCCGCCGGCCCTGCGAGCCTCCAGCCTGCAGCCACCCACTCATCTTACCGAAGCACTGCTGTCCAACCTGCCAGG
Seq A exon
GTAGGAGGGCACTCCCCCTGACCCCCTCACTCCTGCCAGGCTAGACAGCAGTGGGCAGGAAGTTTATATTACCAAGGAGCCCCATCAACTCAACCCTGAGATACACATGCACATGCGTGTGCGCGCGTGTACACACACGCACTCTCTCTCTCTCTCTCTAACCCACCCCCAGAATTCCTGCTCTGCCCTCTTCTCTGTCCCCGTTGTCCCTGGTTTCACCCCATCCATTGGTCTTTTGCATTCTAAACTTCCTTACTCTTTTTTCTTTTTGGTTCTTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGTAAGCGCTCTACCACTGAGCTAAATCCCCAGCCTAAACTTCCTTACTCTTAAACTGTCTTTGCTGCCTTCTTAAAATGTCACCCCCCCCGAAAACCATCCAGTGGCTCCCGTTACCCTTGAGTCATCTACCAGGAGGGGCAGCTTCTCCTGTCCATCCCTCTCTGACCCCCCATCTGGGTCACAGATCCAGCATGCCTGTGCTGCCCTGTCCTCTCCCATGAAGGCAGGATGTGAAACTTGGCCTTTCACCCCATTTCCCATCCACTGTCTTCCAGCCACTTCCTACATGCAAATCTCTGCAAACTCCTGTAGCCTGGGTGATATTATCCCTCCTGCTCCTCCCCTCCAGTCCTCCTCCTCTGCCATACTATCTCTAGCTAGACTGTGTGGGGTTTTTTGGTGGGGGGAGAAGGGCCTCAACATGGCGTGTGTGTGTGAGTGTGTATGTGTGTGAGTGTGTATGTGTTTATCCAAGTTGCAGGGGAAGGCTCTGGTGATGGTGGTCCTCCCATTGCACTATCCATTTTGCCAG
Seq C2 exon
GATGCCTGTACCACGGAATCACCGCTGCCCTCGGAGAGACCCTTCCTGATCCTCTTGACCCCACCTGCTCCCTCTGCACCTGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:23
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:
PF0009313=VWC=WD(100=95.0)
A:
NA
C2:
PF0009313=VWC=PU(47.4=93.1)
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:
GCTGTGAGTATTTGGGGGTATCC
R:
CTCACAGGTGCAGAGGGAGC
Band lengths:
263-1119
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]