DreINT0177935 @ danRer10
Intron Retention
Gene
ENSDARG00000027109 | zfr
Description
zinc finger RNA binding protein [Source:ZFIN;Acc:ZDB-GENE-030131-378]
Coordinates
chr5:40524583-40527007:-
Coord C1 exon
chr5:40526910-40527007
Coord A exon
chr5:40526191-40526909
Coord C2 exon
chr5:40524583-40526190
Length
719 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
ATCATTCACTTTCTCCACAGTTT
3' ss Score
9.31
Exon sequences
Seq C1 exon
GTGCTCCAGGATTGATTGACCCCTGTGAGAAGAATCCAACAGATACACTAGCATTCATGGAAGAGCAACAGAGAGAGGACATTACGTCAAGCGCTCAG
Seq A exon
GTAAAATAACTTTTGTCAGTCAAATAAAAGACTCTTTATTTCATTCAAGGGTACATTTTATACTTTTAAGTTTGGTTCACTTATAGTTCAATTCCAGTGAAAGGTATGGTTCGGTTTAATAACCATGGTTCGCTAATCCATGTATTCTGTTATTTCCATAACCATAAACCTACTAACTTGAGGTATGTTTGCTCAAACCACTTTTGGCAGTAACATAAGTATGTTATCCATAAACGCAATTGAATTTCTCAACCGATTACTTTAACCAGAGGTAACAATGGAAAGCAAAACCCAAAAAGCAGATTGCCACACCTTTCTCCTTCTATTTAAGGGCGAGTTACATTCTTTAAGCTAATCGACCAACCCCACCCCCACTCTATTTGTGTGCGTGCGTATAGTGTTATTTTTTATATATATATATATATATATAAATATATATATATATATATATATATATATTTATATATATATATATATATATATATATATATATATATTTATATATATATTTATATATATATATATATATATATATATATATATATATATATATATATATAAGATAAGTAAGGGTGAGGAATTAACATTTATTTATTTTTATTTTTTTGGGTAAACTAAAGAGAACCGATCCTAAAGTGTTAATGCACCCTAAACTGAATTATGTGTTTTGATCGTTTTATAATTATGAAATGTGTACTAATCATTCACTTTCTCCACAG
Seq C2 exon
TTTGCCTTGAGGCTGCTGGCATTCCGGCAGATTCACAAGGTTCTGGGTATGGACCCATTGCCCCAGATGAACTCCCGCTTCAACGTACGGAATACCCGCAAGAGGCGTCGTGACAATAGTGATGGGGCTGATGGATTTGAAGCTGAAGGCAAGAAGGACAAAAAGGACTACGAGGGGTTCTGAAGTACACTACAGTACAACTAGTCCTTTTTTTCCCTGCACCGTTTCCAATCCTATTCATTCCAGGAATACATAACGCTATTTCTGTTGACCTCTGTGCATGCCGATTACTAGTCTTTAGAAATGTTTTTTTTAAAAGCTGGTAAAGACCTAATGATGGCCACTTGAGGAGATGCCAGGCTTCATTTCCTTAACACCCAGACTGTAGTCCATCTCAATTGTTTAGTCTGGTGTCTTGGCTTAAAGATTTGAAATGCGCACAAACCAGAGAAGTTAAGCCTAATGTTCATGCTCCATTCAGCACATCAGATGTAAAATTTTTCACCATCTTCAGATCTCTTATGAATCCAAGGCTAGGCAGTTTTAGAGCTGTGTACTTGCATCAGTGTGAAACCGGTTCATTCTTTAAAGTATATCTTAACCTTCCTGTCATATGTGTGAAGTAACTTTGACAATTGCTTCCCTGGCTTTGCAGTAATTTTAGTTGTGTTCATAATTTATTTTGATTGGAGACATTCCTCTTAAAACCACAAGATCAAAGAGTAAATGATCGATTAATGCGAGCTGTTAGTCCTGTTATGATGAATGTGATGCCATTGACTGGACGTGGATTTATTTTAAGCATGTACTTCCCATTGCTCATGCATTCTAAAGGCCGGGTTGGCTTTTAAACCATTTGTAAGTTTGTCATTGGCAAATTCATATCCTTGAAGTGTCTCTAGAACCTTGTTCCTTCTGTTTGCTTAATGCGAGTGATGTTAGGCTGTAAGTGTGCTCTGATATCCACAGGCCTCTGTTGTGTAGCTGTTGCGTTTCTCAGACCTGGGCCAAATACCAGAACTATTAATCGATTTTCTCAGTAAGTTTAATTTCAAATTGAGTTGTTACAGTCATTTTGGAGCAGTTGTTCACAGGGATTTCTATAAAAAGTGAGCATTGGAGGTGTTTTTAAATAAAATTTAAAAAACATTGGTTTACTTTTCTTTAAACTGTAATTGACCCAGGTCTGCCTGTGTTTTATTTCTTTTTCTGTTCATAATATTGTAAACCCTAAATGTATCTTTAAGTGTGATCATATAACTATATGATCTCTAATATATGATCATTTAATAAACCTGTATCTAATCTTCCAGTAGATCTTCAAAAACAAATGCTTGTATGGTTTTAAAGCACAGGAATGTTTTTTTTTTTCTTATGTTCTGTTTTTATGGGTTTTGTTTTACTGATTGATAGATGCATAGTTGCTTGCTCTTAAGTTTGGTTTCTGATTCAAAGTTTGTTGAATATCTGTTAAAGAAGAGAAGGACAAAAGTGAAAAATATCTGTGTTGTAACTGCAGATGTATGTAGACTTACCCTTTGATGCTTGTCATTCACTGTCAAGGTACTACTGCATTACAATGCATATAATAAAACATTTCTGGAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027109:ENSDART00000074789:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.242 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF075289=DZF=FE(12.9=100)
A:
NA
C2:
PF075289=DZF=PD(8.8=36.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACTAGCATTCATGGAAGAGCA
R:
GTAATCGGCATGCACAGAGGT
Band lengths:
345-1064
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]