GgaINT0124563 @ galGal3
Intron Retention
Gene
ENSGALG00000004789 | CIZ1
Description
NA
Coordinates
chr17:5720943-5722211:+
Coord C1 exon
chr17:5720943-5721012
Coord A exon
chr17:5721013-5722089
Coord C2 exon
chr17:5722090-5722211
Length
1077 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
CTTCCCCTCCCGTTTCACAGGCC
3' ss Score
11.52
Exon sequences
Seq C1 exon
ACTGGGCTGAAGGAAGTGTCTTTGGAGGATTACAAAGGAAGTGAGAAGTATTGTCCAGATACAGCCTATG
Seq A exon
GTAAGCAAACACAGAAGCATTAAGGCCCACAGAATCTTCTCTGGCTGCATGCCATAAGAGAGGATGGTCTCTATCTGCTGCTGTTACAAATTCTTCGGCTATGTTGCTTCAGCATCTGCATCAGACTGTTGCAGGTCACTGCTGTGTGGAGAAGGGGCCAAGTTGCTCTCTAAACTGATGATAAGGATGTGATGGATGTTTGTCAGCTGCCTTTCCCTTTGAGGAAGAAATGGTGAGAGCCAGATATCTTACCAAGGCAGGAAACGGTGCAAATGGGATAGGAGTACTGAAGAAACTAGGTAGAAAATGAGGGATGCTCTGAAAAAATGGAGCCTAAAAGCATATTGATGAGAACACTTTCCAGCAGAAACGCAGCTTATATGGAGATACTGAACAGTACTGATGGCATCAAGCTCTCTGCCAGAGCCCAAACTGTGCATGTTTCCTCTGCTTCAGAACCCCCACATTCTACTTAGCGGTTATTCAGACATGTTGCTGGACTGGTGGGCAGTGTTGCCTCCAGATGGCTCCTTCTTGTCCCCACCTTGTAAGCGATTCTGACTTCAAACCTCTAATGGCCACTTGTATTGTGCAGAGGGCAGCTCTGCAGAGGCCGTTTTGTGCCCAAGGAGAGTGCTGCTTACACCAATCTTCCATATCGCTGTAACCTTCCACTGTCGTGTGGCAGATGGAATAATGATTCATGCTGTGAATGTTCTCTGCGTGTTCCTCTTGCGCGCCTGCTGTCTTCTGCTTGGTTTGATCCCATTACATTAGATCACATGTTCTCTGTAGTTTTCCATTGTATTCCTTTCCTTTTTTTCCCCTTAATGCTATGTGTAGTTTCTTTGCTCTGGCAGCCAGATTTCTCTCTGAATATCAAGCGCACAGCCATCCCATGGTAAGACAAGATATTCAGCAAGTCATCTTGCAAACCCCTCATTAACAGAAGCAAAGCTTTCCAATTTCCTTTCTTCTTCCCTCCTTCCCTTGTTTAATTTCCCTTTTAACATACTTTCGTTATTTTGAGTTCCATTCAATGTGATCTGTGATTTCCCTTCCCCTCCCGTTTCACAG
Seq C2 exon
GCCTGGATTTTCTGGTCCCCGTCGCAGGTTACCTCTGCAGGCTGTGTCACAAATTCTACCATAGCGACTCTGCTGCCCGGCTCGCACACTGCAAGTCCCTGATGCATTTTGAGAACTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004789:ENSGALT00000034607:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACTGGGCTGAAGGAAGTGTCT
R:
TGAAAGTTCTCAAAATGCATCAGGG
Band lengths:
191-1268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]