RnoINT0078161 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56780171-56781347:-
Coord C1 exon
chr4:56781254-56781347
Coord A exon
chr4:56780260-56781253
Coord C2 exon
chr4:56780171-56780259
Length
994 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
GGCCTGCTCTCTATCCCTAGCCT
3' ss Score
8.55
Exon sequences
Seq C1 exon
AGGAGCCTGGTTCGGTGTGTGCCTGTGAAGTGCCAGCCAAGCCCCTGCCCCAACCCAGTCCTGAGACCTGGACACTGCTGCCCAGTCTGCCAAG
Seq A exon
GTGAGATCCCACGACCCTTCCATTTCTATGTTCATTGATTTAATGTGTATGGGTTTATATTGCATGCTGGTGCACCGTGTGTTGCCATGCCTGTGGAGCTACGTGCCGAGGATCGAACTCGTGTCCTCTGGAAGAGAAGTCAGTGGTCTTAAACACTGAGTCATCCTTCTAGTCCCAGTGACACTTTTTTTTTTATAGCGTCCCCAGCAGGCTGTCACTATTTCTACTCCAGAGCCCTCCCTTCCAGACTGATGTTTGATTGGTGGGCGAGCAATGCTAGCCCAGCAGCACATTCTGGAGCTACAGAGCCTGAATTCAAAACTCCCCGCTGTCTCATAGTCAGTTCCATGACTCTAGGTCATTGTGCCTTGGTTTCTCCACTTGTAGGGTGCATGGGATATACCTTCAGGTGTTGTACAATCAATGGCTATCATCTGCTCTGGGTGCCCAGACCCAGAACCCTCCCTCAGGGATTACCACTAGATGGTGCCCCTGAGTCACATCCACACTATAAAGGCACAGCCAAGAGGCAGAAGCAGGGACCAGGTACTGCAGAACCTAAGGGGAAGGAGACCAAGTCCTACAGAAGGAAGGCATTCCAGGGAGATCCTGGCTGAAGTGGCACTGGATAAAGAACAGTTAGCTTTGGCGGGGGTGGGGGGCGGCATAAATGAGGCAGGAGTGTTTGGGAAGAGGATTGCATGTTCAAAGACTTGGATTGGCCTGCGGGTCCATGTGTTACGAAGGTCCTATCATAGGTAGGACTGGCCAATGCTTAGTGGGAGAAGTGAGGAGCAGTCACCACAGTGGGGCGAGTGGGTGCTGTGCTGTGTAGGACCGCATGGAAGAACAGGCTGAGGAGCCGTGAGGACCTTACCCTGCCTGGAGCATTGAGGGTCCCTGAGAGTCAGAGGTAGGAGCGTGAGAGGAGCATGAAGAGGAAGGCAAGATGAGGCCCAAGATAATCCCCGTTAGGCCTGCTCTCTATCCCTAG
Seq C2 exon
CCTCCGGCTGCACAGAAGGTCACTCTCACAGGGACCATGGCCAAGAGTGGACCACTCCTGGAGACCCCTGCCGCATCTGCCAGTGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:8
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:
PF0009313=VWC=PU(45.6=86.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
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:
AGGAGCCTGGTTCGGTGTG
R:
AGGCACTGGCAGATGCGG
Band lengths:
182-1176
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]