RnoINT0035054 @ rn6
Intron Retention
Gene
ENSRNOG00000039315 | Cfap157
Description
cilia and flagella associated protein 157 [Source:RGD Symbol;Acc:1560002]
Coordinates
chr3:11814955-11815356:-
Coord C1 exon
chr3:11815226-11815356
Coord A exon
chr3:11815106-11815225
Coord C2 exon
chr3:11814955-11815105
Length
120 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
GCTGTCTTGTCCTGGACCAGGAG
3' ss Score
5.94
Exon sequences
Seq C1 exon
GTTATCCTCATGCTGACAGAGAAGTGCCGCCAGCAGAGAAAGGGCACAGAGGAGGCAGAGCAACTGCGCCTCCAGCTGTTCCAACTGGAGCAGAACATCGAGACTCTGGAGAAGGCCAACCAGACCCTGCG
Seq A exon
GTGAGCCTCAGGGTTCGGACTGGCAGACAACTTGAAGCCTGGATTTAGATAGGCTGCAGAGGAAAGGCGGGGCCCAGGGAAGAGATGGGGCAAGCTGTGTGCTGTCTTGTCCTGGACCAG
Seq C2 exon
GAGCGAGAAAGACCAGCTGGACGAGCAGCTGAAGGAGCAGCGGGCAGAGGCAAATCGGCTACAAGAGGAGCTGACCAAGGAACAGAAAATTCGGACAAACCTTAAAACAGTGCTGACCCAGGCCACCTCCCTACTGCGGGACATTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000039315:ENSRNOT00000020660:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.159 A=NA C2=0.549
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
CATGCTGACAGAGAAGTGCCG
R:
GCCTGGGTCAGCACTGTTTTA
Band lengths:
246-366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]