RnoINT0078144 @ rn6
Intron Retention
Gene
ENSRNOG00000021855 | Kcp
Description
kielin/chordin-like protein [Source:RGD Symbol;Acc:1561119]
Coordinates
chr4:56768718-56770049:-
Coord C1 exon
chr4:56769956-56770049
Coord A exon
chr4:56768892-56769955
Coord C2 exon
chr4:56768718-56768891
Length
1064 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAC
5' ss Score
7.48
3' ss Seq
CCTGCCTACCTGGGACACAGGCT
3' ss Score
4.09
Exon sequences
Seq C1 exon
GCTGGCCAGGTCAGCTGTATGAGGCTCCAGTGCCCGCCTCTGCCCTGCTTGCTTCAGGCCACAGAACCAGGCACCTGTTGTCCTCGATGCACAG
Seq A exon
GTATACCCAGCCCTGTACTCACACTGAAGCCCCTGGCTCTATAGCCCCCCTGCTGCCTCTCTTGCCTCAGTTCTTGGCTGTCCCCCTAAGCAGCATTCAGCCTTTCCTCCCCCAGAGCAACACACAGTTCGTGGGTTGGCCAGATTCCTCTCCGTGCTGTCTCCCTATTTCCCAGTCATAATCATCATCATTAGTAACAATTATTGAGCACCGTATTAGACAGTGTACTAGACCCTGAGCTAAGCAAAACACACACACACACACACACACACACACACACACACACACACACACACACACACACTTTAAGGAGCACCATTATCTTATCTATAAATTTTATACTCCAACCTATTTTTATTACATTTATTCATTTATTTTTGTTGGGGAGCACATCACAGCCTGCATGTGGAAATCAGAAGAAAATGGGAGTCCTTTATCTTCCTTCACCACCTGAGTCCCGGGGGGTCCAACTCGGGTGGTCCAGTTTGGTGTCCAGTGCATTTTCAGGCTAAGGTGTCTCTCTGGTCCCCTTCCTCCCATGAGAAAAAGGAGGCAGAGGTGACATAATTTGCCTGGCCCCTCAGGTTGCAGGTATCGGGGTCAAGATGCACATACGTGCTGGCCAGTGACTGGAGAACCTCAGCCTCTCTTGGCCAGCCTGCTGCCTCTCACCACCCTGTGTAGTTAATCCAGAACTGGTTCAGCATCTCTTGCGCTGTAAACAAGGCAGGACAGATATAATTCCCATTAAATACAGGAGAAGCCTGAGGCACACGGTAGTGATAAGACCATTCATTCATTCCACGTCTACCTACTACATGCCTGCTGTGTACCTGTGTTGCATGGTGGGTTCCATAGATACTGTCTGCTGCCTGCAGCCTTGATCAAACACGCAAGTGGCTCCTTACACTTCCACGGACATGAGTTCTGCCCTAGTTCATACCACATCCCTGCAGAGCTCCCTCTTGGTGCCCGCATGTCCATGTGCTGACCACAGGTGGGGTTGGGGATGCAGAAGCTCAGATCTCAAACTCAAAGCTTATACCTGCCTACCTGGGACACAG
Seq C2 exon
GCTGCCGCGTTCGTGGGGAGGAGCATCCTGAAGGTAGTAGCTGGGTGCCGGCGGACAGCCCCTGTTCTTCCTGCATGTGTCACAAGGGCATTGTCACTTGTGCCCAAGTCCAGTGTGTCAGCGCCTGCATCTGGCCCCAGCAGGGGCCCAGTGACTGCTGCCCTTCATGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021855:ENSRNOT00000050795:27
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=WD(100=94.9)
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:
CTGGCCAGGTCAGCTGTATGA
R:
CATGAAGGGCAGCAGTCACTG
Band lengths:
262-1326
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]