GgaINT0124558 @ galGal3
Intron Retention
Gene
ENSGALG00000004789 | CIZ1
Description
NA
Coordinates
chr17:5717959-5718609:+
Coord C1 exon
chr17:5717959-5718142
Coord A exon
chr17:5718143-5718478
Coord C2 exon
chr17:5718479-5718609
Length
336 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAA
5' ss Score
7.46
3' ss Seq
TTCTCTTAACCTTTTCTTAGAAT
3' ss Score
7.63
Exon sequences
Seq C1 exon
GGTGTTGAGCTCTGGAGGTTCACTGAAAGTGACTATCCAGCAGAGCAGTGAGAGCAGAGCTATCAGTACAACAGCTCTGAAACCAGGGCAGTGGACCTGCGAGATGGGCACAGCTGATGCCAGCCCTGAATCAGCCCTTAAATTCTACTGTTATATCTGCAAGACCAACTGCTGCAATCAGCAG
Seq A exon
GTATAAATCCACAGGTCTGACTGGGATGGATGGTCAAGAGAAGTGAACGGGGTGGCCAACTGCCATGGGGATCATCGTGCATCATGAGACTTGTTAGCCAGAGAAGCATAAAAAAATGATGACAAGCATGCAGATAAAGCAAACCCCTTCTGAGGAGCTGGCAAGCAACCTGCTAGGGAACAAGTGTGGGTGGATCCCCAGGCAGCCGTGATCTTAAGCTTTTATACCATTTCATTGTTACACAGCATTTAAGAGAATGGAAAGCGTAGCTCATGCCTGTTATTATTCTGTATTTTGAATATTTTTAAATGGATCTTTCTCTTAACCTTTTCTTAG
Seq C2 exon
AATTTCCAAGCCCACATGGCTGGAATTCAGCACCAGCAGCGACTTGGGGAGATTCAGCACATGAGCAATGTTTGTTTTGTTTCACTACTGCCTATGGTGAAGGAGCAGAAGTTGCTGGCAGAGAAAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004789:ENSGALT00000034607:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.062
Domain overlap (PFAM):
C1:
PF128742=zf-met=PU(52.0=48.1),PF049887=AKAP95=PU(13.8=48.1)
A:
NA
C2:
PF128742=zf-met=PD(40.0=22.7),PF049887=AKAP95=FE(45.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGTTGAGCTCTGGAGGTTC
R:
CCATCTTTCTCTGCCAGCAACT
Band lengths:
315-651
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]