RnoINT0078152 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56763586-56763950:-
Coord C1 exon
chr4:56763778-56763950
Coord A exon
chr4:56763698-56763777
Coord C2 exon
chr4:56763586-56763697
Length
80 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TGGGCCCTTCCTCCTCATAGTGT
3' ss Score
7.8
Exon sequences
Seq C1 exon
GATGAGGTCCCTGCCCTGAGTCCCGGCAGCTGCTGTCCCCGCTGTTTGCCCGGGCTGGCTTCCTGCATGGCCTTCGGAGACCCCCATTACCGCACCTTCGATGGCCGCCTGCTGCACTTCCAGGGCAGCTGCAGCTACGTGCTGGCCAAGGACTGCCACAGCGAGGACTTCAG
Seq A exon
GTATGAACCCCTTTTCCTTCTCCCTGACACCTAAACCTGGCACCTCTGACCTCTGGCACCTGGGCCCTTCCTCCTCATAG
Seq C2 exon
TGTGCACGTGACTAATGATGACCGGGGCCGGAGGGGTGTGGCCTGGACCCAAGAGGTAGCGGTGCTGTTGGGAACCGTGGCTGTGAGGCTGCTGCAAGGCAGGACAGTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:34
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=PD(24.1=24.1),PF0009420=VWD=PU(24.0=62.1)
A:
NA
C2:
PF0009420=VWD=FE(24.7=100)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCGGAGACCCCCATTACC
R:
CAACAGCACCGCTACCTCTTG
Band lengths:
173-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]