GgaINT0040100 @ galGal4
Intron Retention
Gene
ENSGALG00000023421 | CUZD1
Description
CUB and zona pellucida-like domains 1 [Source:HGNC Symbol;Acc:HGNC:17937]
Coordinates
chr6:30920006-30921662:+
Coord C1 exon
chr6:30920006-30920089
Coord A exon
chr6:30920090-30921526
Coord C2 exon
chr6:30921527-30921662
Length
1437 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGG
5' ss Score
6.23
3' ss Seq
GTCCTGTTGTTCCCCAACAGGTG
3' ss Score
11.5
Exon sequences
Seq C1 exon
AAATGAAGGCGCTCAGACAGATCCTCCTGCTGCCTCTCTTAGCTGCTCTGGTTTTTGCTGAAGACAACCCGATAGAATTCATGG
Seq A exon
GTATGGAACGTAACATTCTTTGTTGTGGAATTTAATTAGCTTTTGCACTATTTATTAGGCAACTGAAGAGAAAAATGTCAAATGTACCTCTAAGTGCATCTCATTTTAGTGTATTGCTGCAAAATATGAGCATCTGAGTGTGCCAATAACTGCTGAAGATCGTAATAACAACAACAACAAAATGGCAATATATGACTGGTTATGGAAAAATTTTTAACTTAAAAACACAATTTTGAAGAGATTTTGCTCCAGAATGGAAATGTGCTTGTACAAATTGATACTGCATTGGAGAAATAGGGCTGAAGTGACTTAGAAAGCGCTGCTTTTTAAAAGAGTTTTGGGTATTGTGGTGGCTGTGGGATAATGAAGCATTGGTGCCACGTCAGGCAAAGGAGACCTTGTAATGCTCTTACAGCTCAGAGGTTTCCTACGTGACCACAGAGGTCTGTCCTAAACCTTTCTTTCCCCTCTGCAGTTCAGCAACAAGTCTGACCTGCTCAGCTGGGACTGCAGACGCTGTATAGGAAATGCTTCCTGCTGCTTTAGGCTGTCCTGAACTGGAGAGGAATTGCTCTTGGTGTTTGATAGATACCAAAGTCATTTTTTTCTCTGCGCTTTGTGCTGTTTTGATGTTTAGTTTTAAAATCCACATCAATCTACAGCAAAAATCCACGTTGCAAAGAGGTGGGCTCCTTTTGTTTGCTTAGAAATCACAGCTTAGTGGTTTTGTTTCAGGCCACTGTGTTTTTTTATAGGGGAAGAGAATACCTCACCGTGAATATTGACCTCTTCACCTCTTTCCTGTCCTACGTTGCTTTAAGCTGTTTATTTACTTCTTGCCCCAGAAGTTTCTCTAGGCGTTTGCTCGGCTTTGCTGCCACTTTTTGAAGCTTTCCCTCTTTAGCTGTATCCTTTTAGAGATGGAGGGCCAGAACTGTGAGCAGCACCAGTCACACATGTGGTGCTTCAGAAGCTCACATCTGAAGATCTCTTTTGATTCTCTGGGCGTAGGTCCCCAGCTGCCTTCATGTAAAGGGCTGAAACCCAGAACTAGATCCAATGATCCTCAGGAAAAGAGCATAGGGGGAAGACAGGGCCTGAGGCGCTTGTAACCACCAACCTCGCCAGTGAGAGCTGCCCAGGTGTCCTGTGTCATCTGGAATTTCCAGTTTTTCCTTTGGCTTCACCTGTATGTGTTTCCCTAACTCCATTTTCTCTGCTGTTGGTGAAAACGAGGAGGAAAAAAGATATTTTCTAATACCCTTTTTCCTATTTGATTCTTCAAGTTTCATTAGCTATTGCAGTAGAAATGAAAAATCCCAATGGTACAGTGCTTTGCTTGCCTGCTCTGCAGTGGGCTGTCCCGGAGTTTGCACAGCGCAGGATCAGACCCTGCTGCAAGGCTGAGCTGGTTGCTGTCCTGTTGTTCCCCAACAG
Seq C2 exon
GTGAACCTCAATGCGGTGCTTCGCTCTCAGACCCCAACAAAGCACTCAAGATCAACCTCAATTCAAATGCAAACTGTCTCTGGCACATTCAGAGGAGTGAAAATCAAACAATTAGGCTCATCTTCTCTTATTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023421:ENSGALT00000038694:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.043
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043115=CUB=PU(38.3=89.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATGAAGGCGCTCAGACAGA
R:
TAAGAGAAGATGAGCCTAATTGTTTG
Band lengths:
214-1651
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]