RnoINT0078138 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56774256-56774819:-
Coord C1 exon
chr4:56774631-56774819
Coord A exon
chr4:56774427-56774630
Coord C2 exon
chr4:56774256-56774426
Length
204 bp
Sequences
Splice sites
5' ss Seq
ACGGTACCT
5' ss Score
6.79
3' ss Seq
GTCACTCCCCTTCCCCCTAGGCT
3' ss Score
11.21
Exon sequences
Seq C1 exon
ATGCCCCTGCTGGCTGCCCACAGTCAGGGAATACGGTCCTTGTCCGCCACCAGGAGCACTTTTTCCAACCGGGAGACCCCTGCAGCCGCTGCCTCTGCCTGGACGGCTCCGTGTCCTGCCAGCGACTGCCCTGTCCTCCTGCTCCCTGTGCCCACCCGCGCCAGGGCGCCTGTTGCCCCTCTTGCGACG
Seq A exon
GTACCTCCTTTGTGGCACCCTGGGTGGCAATTCCCCTCTTTTTGCCGTCTCCCAGCCTTAATACCCTGCTCCCCACTTACAGATGCGCCTTCCCAGGGGTCCTCCTCTTCTACCTAGTACTTTAGTAAGAACGGAAGAAAAAAGGCCCACTAACACGGTCTGGCCACCAGCCACCATGATGGCTGTCACTCCCCTTCCCCCTAG
Seq C2 exon
GCTGCCTGTATCATGGGAAGGAGTTTGCCAATGGAGAACGATTTCCATCACCTAGTGTCACGTGCCACGTGTGCCTCTGCTGGGAAGGCAGCGTCAACTGCGAGCCCAGGGCTTGTGCCCCTGCACAGTGCCCATTTCCCACCAGGGAAGATTGCTGTCCTGCCTGTGATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:21
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=89.1)
A:
NA
C2:
PF0009313=VWC=WD(100=94.8)
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:
GAGCACTTTTTCCAACCGGGA
R:
GACAGCAATCTTCCCTGGTGG
Band lengths:
295-499
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]