RnoINT0030824 @ rn6
Intron Retention
Gene
ENSRNOG00000017044 | Ccdc183
Description
coiled-coil domain containing 183 [Source:RGD Symbol;Acc:1560370]
Coordinates
chr3:2839080-2840051:-
Coord C1 exon
chr3:2839884-2840051
Coord A exon
chr3:2839185-2839883
Coord C2 exon
chr3:2839080-2839184
Length
699 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCC
5' ss Score
5.77
3' ss Seq
CATAATCCCACCACCATCAGATT
3' ss Score
3.93
Exon sequences
Seq C1 exon
GTAGCTCGGGAGAAGCTGCGCAAGTACGTCTTCGACCGCGTTAATACACACAACGTACTGATCCACCTGGTTCGGAGACGCGGACAGAAGCTGGAGGGCTTGGAACTGGAGCTGACCAGCTTGCGAAACCAGCCTGAAGCTACTAAGGAGGAACTGCGGCAGCTTCAG
Seq A exon
GTGCCCCGCGGCGGGGCGGGGCGGGGCGGGGCTCCGATTGCGCGCGGGAGCTTTTGAAAGGAGTAGGACTCAGCCAGCGAGGCTTCCAAGGGTTGTGTCTGTGTCGGAGGATGTGGATATTCTGTAAGGGGGACAAAAGCCACTTCAGACAGGCACTGCTATAAGGGCGGAGCCGCTGATTAGACAGTGTTAGGTGAGAAGAGCGTCCTCGTCTTCGCTGTGGTGTTGTCTGTGTAAGAGAAAAACTTGGTAGCCTGTGGGACTGGCCTCCAATGAAGGGGTGAGGCAACATCAGAAGGGTGGGATCTGCGGGCGGGCTGGACCCTTTGGTTAGTGTGTGCCCTTATAAGACTGTGTACAAACAGGAAAACTTATTAACAAGGAGCGGGAAACCGATGACCTGAGGTAATGTTTTATCATGCAGCTGTAAACATGAAGTTGGGGATCAAAGCCATTTTCTGCACGGTGGTTGGGAGGTGGATAAAATGTACAATATTTACTTCATCTGCAGGGCCTGAAGGCAGGGGCAGGATTAGGGGAGCCCAGCATCCTTGTGTGAAAACCTAGCCCCAGTCCCCACCCGCCACCCCATTTACCCTCCTGGGCAGGGTTCAGTCGCTTCACACAGATGAGAACTTGTGAGGAGGTGGGTCTTGTCACCAAGCTTTTTCAATGATTTCATAATCCCACCACCATCAG
Seq C2 exon
ATTATCCGCCAACTGGAGAACAACATTGAAAAGACCATGATCAAGATCACCACCAGCCAGAACATCCACGCGCTGTACAAACAGCTGCTGGATTACCTGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017044:ENSRNOT00000061874:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF053358=DUF745=PU(26.0=60.7)
A:
NA
C2:
PF053358=DUF745=FE(26.0=100)
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:
GTAGCTCGGGAGAAGCTGC
R:
CTTCAGGTAATCCAGCAGCTGT
Band lengths:
270-969
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]