DreINT0143084 @ danRer10
Intron Retention
Gene
ENSDARG00000100131 | si:dkey-173l11.6
Description
si:dkey-173l11.6 [Source:ZFIN;Acc:ZDB-GENE-141212-240]
Coordinates
chr7:52883548-52884386:+
Coord C1 exon
chr7:52883548-52883662
Coord A exon
chr7:52883663-52884138
Coord C2 exon
chr7:52884139-52884386
Length
476 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TGAATCTGTTTTGTTGACAGTCG
3' ss Score
6.63
Exon sequences
Seq C1 exon
GTGTTGTCATATGGATTGGCAGAGAAGTCTCCATGTATAACTGGCTTTGAGTCAAATCTGCTGGTTTTTAAAGTTCACAAAGATCACCTTCACAAAGGAGAGAGACTCGGAAGAG
Seq A exon
GTAAGCGGTGTTCACCTGTCTATTTATACCAGAGAAGCAGCTAAACATTGAGCGGGTAATCAATGCAGACAAACACACATTTATATACATGCACTGTATCTGCTTTCACCAATATAAAAATGAGTGATGTCAATCAAGAAGCATTTTCTTGTCTTGTTTTCAAAAACAATATGCCAAAATGAAGTTTTCCTTAAAACAAGCAACACATTCTGCCAATGGGGTAAGTTCAATAATCTGACGTCAGAACAAAAATAAGATTATTTTGAATTATTTTTAACATTTGCTGAAAACCAGAATATTTTTACTTGTCTATAAAATGCTTCTTGATTTAGGAATTTTTTGTTATTTGTACTAGAAACAAGACAAAATATCTAAATAAGAAAATCATTTATTTGCAGAGCACAGCAAGCTGTTTTGTCAATTCTAATCTGAATCTGATCTGTTTTGTGGTTTTAATGAATCTGTTTTGTTGACAG
Seq C2 exon
TCGTTTTTAACACATGTGATGGAAGAACAGGAACAGATTTTCAGTCCACTGATCAGGAGATTGATCTGAACATGGATGGGACTTTGATGATGAGGAGGTCAGTGACTCTTCATGAAGGCCTCAAGGAGTTTTCAGTGTTTGCAAGGGACTCCAGTGGCAAGAAGCACATGGTCTCTGTCAGAGTTGAGCATGTCCGTTATCATGAGGATCATGACATGAATACTTTAATGAACACTTCCTCTGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100131:ENSDART00000171350:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.114
Domain overlap (PFAM):
C1:
PF087586=Cadherin_pro=PU(30.8=71.8)
A:
NA
C2:
PF087586=Cadherin_pro=PD(68.1=74.7)
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:
TGGATTGGCAGAGAAGTCTCCA
R:
TGTACAGAGGAAGTGTTCATTAAAGT
Band lengths:
351-827
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]