GgaINT0040101 @ galGal4
Intron Retention
Gene
ENSGALG00000023421 | CUZD1
Description
CUB and zona pellucida-like domains 1 [Source:HGNC Symbol;Acc:HGNC:17937]
Coordinates
chr6:30921527-30922078:+
Coord C1 exon
chr6:30921527-30921662
Coord A exon
chr6:30921663-30921897
Coord C2 exon
chr6:30921898-30922078
Length
235 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGT
5' ss Score
8.07
3' ss Seq
ATGTTCGGTTTTTTAAATAGATT
3' ss Score
8.41
Exon sequences
Seq C1 exon
GTGAACCTCAATGCGGTGCTTCGCTCTCAGACCCCAACAAAGCACTCAAGATCAACCTCAATTCAAATGCAAACTGTCTCTGGCACATTCAGAGGAGTGAAAATCAAACAATTAGGCTCATCTTCTCTTATTTTAA
Seq A exon
GTAAGTATCTCCTCCCGCTGTTCCGGTAGCATTTCATTCCATCAAAACAGAGCACAGAAAAATGTTGAAATATATCACTATGGCCGGGCTGAATATCTTAATTTCATCTCAAGACATTGCAGCCTCCAAATATTTATCTGTATTTGCTTCAGTAAAATGCTTGCTGAGCTTGTGCTATGGGCTCCAAGGAACCTGGATATTTATCTGTTCTGTTTATGTTCGGTTTTTTAAATAG
Seq C2 exon
ATTTAATCCTTCTTCAAGCTGTGAAACAGAAAGTATTAAAGTCTATGATGGCCCCTCCTCATCTAATTCACCTCTTCTTGGACAAGTATGTAACAACACTGACGCCGTCCCAGTGTTCCAATCATCTTCAAACAGTCTGACTTTCCTCATTACAACAAACTCTGTGGCTTTCACACGGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023421:ENSGALT00000038694:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(38.3=89.1)
A:
NA
C2:
PF0043115=CUB=FE(56.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAACCTCAATGCGGTGCTTC
R:
TGAAAGCCACAGAGTTTGTTGT
Band lengths:
308-543
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]