RnoINT0044727 @ rn6
Intron Retention
Gene
ENSRNOG00000004772 | Cytip
Description
cytohesin 1 interacting protein [Source:RGD Symbol;Acc:1307990]
Coordinates
chr3:44166020-44166417:-
Coord C1 exon
chr3:44166315-44166417
Coord A exon
chr3:44166114-44166314
Coord C2 exon
chr3:44166020-44166113
Length
201 bp
Sequences
Splice sites
5' ss Seq
TTGGTAATG
5' ss Score
4.83
3' ss Seq
TTTTTCTGGGCTTCTCACAGGTG
3' ss Score
9.57
Exon sequences
Seq C1 exon
ACCTACAGACTTCAGAACCAGAACATCTGCTCTTCAGAAGTGTGCACTATGATCTGCAAAGTGCAGGAAGACAGCCCCGCTCACTGTGCTGGCCTGCAAGTTG
Seq A exon
GTAATGTAGCTCTGCTCATGCTGAAAGCCATTTACATATCAAGAAACTCTTTGATAGCGAAGGTTAGGAAGCAGTTGCTGCTCTGAGTGTTCTTGAGTGACAATGTGCTTTGGGAGCTTGCTTGTTTTGCTTCATTTCCATGTCATTAGTTAAGTAACTAATAAAACACTCGTTTTTTTTTTTTTTCTGGGCTTCTCACAG
Seq C2 exon
GTGACATCTTTGCAAATGTCAATGGCGTGAGCACAGAAGGCTTCACTCACAAACAAGTGGTTGACCTGATCCGATCTTCGGGAAATCTGCTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004772:ENSRNOT00000006387:4
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:
PF0059519=PDZ=FE(39.1=100)
A:
NA
C2:
PF0059519=PDZ=FE(35.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTACAGACTTCAGAACCAGA
R:
GTTAGCAGATTTCCCGAAGATCG
Band lengths:
197-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]