DreINT0181494 @ danRer10
Intron Retention
Gene
ENSDARG00000052188 | znf541
Description
zinc finger protein 541 [Source:ZFIN;Acc:ZDB-GENE-060526-239]
Coordinates
chr5:61307152-61307937:-
Coord C1 exon
chr5:61307793-61307937
Coord A exon
chr5:61307285-61307792
Coord C2 exon
chr5:61307152-61307284
Length
508 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
CTGTCCTCACTGTTCAACAGGAA
3' ss Score
9.02
Exon sequences
Seq C1 exon
AGCAAAGCTTTACAACAAACAACAAAATTAACAGACCATTTAAAAGTAAATAAGGTGTAAATAAATAGGATTGAGAAGAATAACTGAGCATGGAAACAACTAAAGCACCCTGTAAAGTCGTCACGTGTAGAAACTACTGAATAAG
Seq A exon
GTAACTTTCAGGGCGTTAATCTACAACACAGTACAAGCGAATCGGTTCTTTGAATCGGTTACCGTTAATTGAATCGCAAAGCTTCCCTCGGAGTTTCTGCCGTTTTCCCAAAAAACCCGACTCTCAAGTTTGGATAAACATGTAACGTAAACATTTGTTCACATACGTAATTTTATTAGTTTACAGTGCGGATTTGACATTTTTAGGTTATGGTTTTTACATCTTGTATTTTTGCTTTGCGTTAGCTAACGTTTGCTCACTTACGTTAACTTACACGTTTCAATATTGCTACCATCTTAAAAAATTAAGCTAACGTTATTTGCTAACTAGTGAACGTAACTTATGTGTTTAACGCATGAATAATCGACCAAGTAACAGTTACTATTTCTTGAGCGCTTGCAAATGTCTCCACTACTTTTCAAGCTAGCATTTGGAATTTTGCTCGTGAAATGCGTCTTTTTCATTTATGAATTATTGTAAACTACTGACTGTCCTCACTGTTCAACAG
Seq C2 exon
GAAAACAGCTAGCAGTCAGTGAAGAAGATGCAAGATTCCTCAGATGCTCGCAGTGTGCCTAACGACACGACCTACATAACAGAGCTGCCGCTCAGAGGGTCAAATCTGTGGCTAAACACCATGACTGATTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052188:ENSDART00000143161:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.611
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAAAGCTTTACAACAAACAACA
R:
TTGAATCAGTCATGGTGTTTAGCCA
Band lengths:
278-786
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]