DreINT0136769 @ danRer10
Intron Retention
Gene
ENSDARG00000076814 | si:ch211-165b19.9
Description
si:ch211-165b19.9 [Source:ZFIN;Acc:ZDB-GENE-070912-136]
Coordinates
chr9:32860371-32861383:-
Coord C1 exon
chr9:32861181-32861383
Coord A exon
chr9:32860516-32861180
Coord C2 exon
chr9:32860371-32860515
Length
665 bp
Sequences
Splice sites
5' ss Seq
GAAGTGGGT
5' ss Score
2.85
3' ss Seq
TCAACATTCTATATTTTTAGGGA
3' ss Score
8.84
Exon sequences
Seq C1 exon
ATGTATTATAATAATATATGTATAATCCTAATATCATATTCTGTCATTAAAACAGGAGGGATGGAGAGTGGTATTGTTGGAGGCAGAGAGGTTAAACTTCATTCCAGACCATACATGGCATCTCTGCAGGTACAAAGAAAGCATAATTGTGGAGGGATACTGATAAAGGAGGATTACGTGTTGACTTCGGCTCATTGTTGGAA
Seq A exon
GTGGGTATATGTATGCAAACATTATTTCACTCCTAAAAATCTAGGTTCTTTTCAAAGTGATGTTGTAGGGGGATAATTATTTGTTTCCACTTAAGCATATTTATGATTATTTTGTGTGTGTGTGTGTGTGTGTTTGTGAAGAACATTTAACTTTTACTTTTTCCCCTATAAGCGATTGCACGATTTAAAAAAAAAAAGGTTTTAAAAATTGTAATGCTTAAAAATAGCTGTTCTTTATTGGCATTGATGGCTCCTTGAGGAACCGTTACATTCACCATCCATTAAACAGACTTTTATTTTTATTGATATTCATTAAATTTAGCATATTTATGATTTTTTTGTCTTGTGTGTGAAGAACATTTAAATATAACTTTTCCCCACTATAAACCATTACACACTAAAAAAAGGTTTGAAAAGGTGTCGCACTTAAAAATAATTATTGCTCTTCTTCATTGGCATTGATGTCTCCTTGAGGAATCCATTATATTCCTTAAATATTAAACAGACTTTACTTTTATAGTTATAATAATGAATTAAATGAATAATTTTATTATTATACCATTTTGACAGAAGAAAGGTTCTTTAAGTCATTGTTTTAGCAGTGTTGCTATATTAAACTGTAGCAGTTATCACTACAAAATAACCTCAACATTCTATATTTTTAG
Seq C2 exon
GGATACAACCAACTTAGAAGTTGTTCTGGGAGCTCACAATATCAGCCAGAGAGAGAACAGTCAGCAGATAATCCAAGTCCAGAAATACATCAAACATCCTAATTATCAGAAGAAAAACCACAGTTTTGACATCATGCTACTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076814:ENSDART00000140581:1
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=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.4=63.2)
A:
NA
C2:
PF0008921=Trypsin=FE(21.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CATATTCTGTCATTAAAACAGGAGGG
R:
AGTAGCATGATGTCAAAACTGTGGT
Band lengths:
310-975
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]