DreINT0143083 @ danRer10
Intron Retention
Gene
ENSDARG00000100131 | si:dkey-173l11.6
Description
si:dkey-173l11.6 [Source:ZFIN;Acc:ZDB-GENE-141212-240]
Coordinates
chr7:52882456-52883662:+
Coord C1 exon
chr7:52882456-52882587
Coord A exon
chr7:52882588-52883547
Coord C2 exon
chr7:52883548-52883662
Length
960 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TCAAATTTGTTTAAATTTAGGTG
3' ss Score
7.87
Exon sequences
Seq C1 exon
AAACAACTGCAATAGCTGTGAACTCTGAACAACCAGTCAGAAAGTGATTTCTTAAAGAGCTTTCAAGACATTTTGTTTCAAACTGTGATGAGGATGACTGTGGGATTGGGAACCCTCTTTTTGATTTTCAAG
Seq A exon
GTAGGAGTCTATTTTCAGAAAAATTCTATACGTTTAATTTATAAGTGAGTTTGAAAATAAATGTGTAAATATTGAAATAAAATGTTAATTAAAATAGAAAAAAAAAATTTTCGCTCCTGTGAAATTAAACTTCAATAATATGTTTTTTAGAACATTTTCTTTTGCACTCAAAAAAAAAAAAAAAAAAAAAACATAGATGTTTAGAACCACTTGAGGGAGATTAAACAGTGAGTAAAATCTATTTATGACAAGTCAAAACACAACTGCTTAAAAAGTAAAGATGCTCCAGATGGTTTGTCAGTCTGTCTGTCTTTGAAATCAAATAATAATTTGGACATTCATCCTGTTAAAAGTTTTTTCAATCAATCAGTCAGTCAGTCAATCAGTCAGTCAGTCAGTCAGTCAGTCAGTCAGTCAGTCAATATAAGTCTTTTTGTGAGGTCTGTATAGTAAAGGGCTTGGAGACCCAAGGCACAGCAAGTGAGCGTGCTTTAAATGGTTTTAGTAATTAATTTTACACAGAAAAAGTTGCTCCAACTGCAATGAAAAGTGTCTGTCTGCCTGTCAAGCCAAGTCTGGGTTTGGCATTTACCAGAACAGTACTTCCTTGACTGCACCGTGTCAAGTGTAAAGTTGGAGGGGGATCAAGATGAAGTTGTTCGCAGGGGTTGGGCCTCCAGTAAAAAGAAGCTGTGATGCTTCAGCATGCATTACATTTTGAACAATTTTATGCTCCAACTGTTTGATGCTGTGAACAATTTGTGAATGCCCCCTTCATGCTCTAACATGATGGGCACCAGTGCACAAAGCAAACTCTATAAAGACATGGATGAGTAAGTTTGGTGTGGAGGAACTTGAAAAAAAAGTGACCAGAATTGATATTAATTAAAAAACAGTAAACTATAAAAGCACCATGTCAGTGTAAATGTTATATAAAACATCAAATTTGTTTAAATTTAG
Seq C2 exon
GTGTTGTCATATGGATTGGCAGAGAAGTCTCCATGTATAACTGGCTTTGAGTCAAATCTGCTGGTTTTTAAAGTTCACAAAGATCACCTTCACAAAGGAGAGAGACTCGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100131:ENSDART00000171350:1
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:
NO
A:
NA
C2:
PF087586=Cadherin_pro=PU(30.8=71.8)
Main Inclusion 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:
TGCAATAGCTGTGAACTCTGAACA
R:
TCTTCCGAGTCTCTCTCCTTTGT
Band lengths:
239-1199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]