RnoINT0078133 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56775285-56776108:-
Coord C1 exon
chr4:56776015-56776108
Coord A exon
chr4:56775459-56776014
Coord C2 exon
chr4:56775285-56775458
Length
556 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
CTCCACTGTTCGCCACCCAGACT
3' ss Score
5.02
Exon sequences
Seq C1 exon
GATGGGACTGTGAGGTGTTCGGTGATCAACTGTCCTTCCCTGACCTGTGCCAAGCCCCAGAATGGACCAGGCCAGTGCTGCCCCAAGTGCCCAG
Seq A exon
GTATGCACTTATTGTGTCTGACCGGCCTTGGGGCCCAGACCCTGTTGTCACACAGCCCAGTGGGACCTACAGATATCTTCCAAAGCAATGGCTTTTGTAAGTGTTTTTGGTCCCACACAAATAAAACCCTCTCTGGAACTCACAAGGACATGGGGGGAGGAAAATAAGGATTTGCTTTCCTTTCGTGTTAGGGGACCACCCTTCCCTGTCACCCTACATATCCTCTCAGATGCTCTCACCCATGAACTCAAGTAACACAGGTTGCTGCAATGGGGGGTATGATGGGGCAGTACAGTCCCGGTGGGCATGGTGATGTGTCCTAGGCACTCACGTGTGTAAGCTTTTTTTTCTCAGCACCCTCAGAGACACACATTCACCTCCATCTTTTCCACAGCTGTGAGAGTGATACACACTGCTACACACAGCCCCCTTTCTTTTTTTATCGGTTGGAGACAAACCGGTGGCTCTGGATTCTGGGAGCCTCAGAGAAGCTGCAGGTGACACCTAGCACTGTCAATCTCTGCCTGAACCCCTGTCTCCACTGTTCGCCACCCAG
Seq C2 exon
ACTGCATCCTGGAGGCACAGATGTTTGTAGATGGGGAGCGCTTTCCTCATCCAAGAGACCCCTGCCAGGAGTGCCTGTGTCAGGAAGGCCAGACTCACTGCCAGCTCCGAGCCTGCCACAGCGCCCCCTGTGGTCACCCTCTGCCAAGCACCTGCTGCAGGAATGACTGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:17
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(50.9=90.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGGGACTGTGAGGTGTTCG
R:
GCAGGTGCTTGGCAGAGG
Band lengths:
249-805
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]