GgaINT0046067 @ galGal4
Intron Retention
Gene
ENSGALG00000012545 | CYTIP
Description
cytohesin 1 interacting protein [Source:HGNC Symbol;Acc:HGNC:9506]
Coordinates
chr7:35720312-35720639:-
Coord C1 exon
chr7:35720537-35720639
Coord A exon
chr7:35720406-35720536
Coord C2 exon
chr7:35720312-35720405
Length
131 bp
Sequences
Splice sites
5' ss Seq
TTGGTAATG
5' ss Score
4.83
3' ss Seq
GCCTCTGCTTATCTCTACAGGTG
3' ss Score
11.9
Exon sequences
Seq C1 exon
ACTATTAGATTTCCAAACCAAACCGATTACTCCTTGGAGGCATGCACTTGTGTCTGCAAAATTCAGGAGGAAAGTCCTGCCCACTTTTCTGGCCTTCAGATTG
Seq A exon
GTAATGACTTGTTTTCTTTCCTACCTGTGGGTGGCCCTAGTTGCTTTTCTCCACATTAGTTTTGTTTTAGAGAATGTGGAAGGGATGCGTATGCTGAAGATGCTCATTGCAGCCTCTGCTTATCTCTACAG
Seq C2 exon
GTGATATTCTTGCCAATGTCAATGGAGTGAACACTGATGGTTTTAGTCACAAGCAGATTGTAGACTTGATAAAGTCTTCAGGGAACTATTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012545:ENSGALT00000020489:4
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(39.5=100)
A:
NA
C2:
PF0059519=PDZ=FE(36.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTAGATTTCCAAACCAAACCGATT
R:
AGTTCCCTGAAGACTTTATCAAGT
Band lengths:
186-317
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]