RnoINT0078128 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56776873-56777325:-
Coord C1 exon
chr4:56777232-56777325
Coord A exon
chr4:56776959-56777231
Coord C2 exon
chr4:56776873-56776958
Length
273 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TCCCCTGTCCTCCTGTCCAGGCT
3' ss Score
9.95
Exon sequences
Seq C1 exon
AATGGGAGTGTCCAGTGTGAGCCTCTGCCCTGCCCGCCTGCACCCTGCAGATATCCGGGCAGGATCCCCGGGCAATGCTGCCCTGTCTGTGATG
Seq A exon
GTGAGTGGGGGCAGGGTCACCATTCACCATTCGGGGGCAGGCACCAACTAGGGACAGACTCTGGATGGTGGTGAGCTCTTCTTGCCTTGCGCCCACACCCCTAACCCATAGTTGAGTCCTTACCTAGCCTAGGCACACACATAGATCTCTGTGGTGGCCTAAAGGACATGCCTAAGCGATCTTCCTCAAGATGGGGATATATGGGTCGGCGTGGCAAGATGCTTCCTGCTTAGCCACTAGTCCTGTCCCCCAGTCCCCTGTCCTCCTGTCCAG
Seq C2 exon
GCTGTAAATACCAGGGACATGAATATCGGAGCCAGGAGACCTTTACCCTCCAAGAGAATGGCCGCTGCCTTCGGTGCACCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:12
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(51.8=90.6)
A:
NA
C2:
PF0009313=VWC=PU(49.1=93.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGGGAGTGTCCAGTGTGAG
R:
CTGGCAGGTGCACCGAAG
Band lengths:
180-453
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]