DreINT0051779 @ danRer10
Intron Retention
Gene
ENSDARG00000060106 | crb2a
Description
crumbs family member 2a [Source:ZFIN;Acc:ZDB-GENE-060612-1]
Coordinates
chr21:8389707-8390539:-
Coord C1 exon
chr21:8389962-8390539
Coord A exon
chr21:8389873-8389961
Coord C2 exon
chr21:8389707-8389872
Length
89 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAT
5' ss Score
7.87
3' ss Seq
GTCATGTGGTTGGTTTGCAGATG
3' ss Score
8.16
Exon sequences
Seq C1 exon
ATATGCCTACCTGGACATTTGGTCATGAGAACTCCACAAGTTTTCTTGCATTTGAACTGCTGTCTGATTTTGGAAGTAATTTTAGCGTGTCATTCTTCCTTCGATCCCTTAAATCAAGCGGATTATTATTTCAGCTACGTAGGTCAGGGGTTCAGGGGACAGAAGATGAACCTTATTTCACCATATACCTGGAAATGGGACGATTACAGGTGACCTCTATGGCGGAGTCACCCATTCTGTCATCACCAGTGTTTGTCTCCAATGGAGAAAAGCCACTGCTTCAGGTGGACATACAGGATGGTCAGGTTTTCTTTAATCATGGAGGATATCGCTACGGGCTTGGCTTACTGCCCGACTTGGAAGTTCTGGAGGGAGACTTGTTGTATATTGGTGGAGTTCCAGGTGAAGAGGGTGCAACTGTTTGGGGTGGTCATTTTAAGGGCTGTCTGCAAGACCTGAGACTGGACGACGTGCATCTGGATGTGGAAGACTGGAATAATACACTCAGTGAGAGCATCTATATCGCCAGTGATTCAGAAAATGTCCTTCCTGGGTGCACGAGTGATGACACTTGCAAG
Seq A exon
GTACATAGATTACATGTAGGTTTTGTTTCACTAAATGTGTTCCTGCTGATGCAGTTTCGAAAAGCTAATGTCATGTGGTTGGTTTGCAG
Seq C2 exon
ATGGAGCCTTGCTTAAATGGAGGAGCATGCACAGTCACATGGAATGACTTTATTTGTTCCTGTCCAAAGGATTTCACAGGAAAGACATGTGAAACCAGAGTTTGGTGTGTCAGCGATCCATGCATAAATGGTGGACACTGCGTAGATCTGTTGGATGGTTTTGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060106:ENSDART00000084378:8
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=0.000
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=WD(100=64.8),PF0000822=EGF=PU(18.9=3.6)
A:
NA
C2:
PF0000822=EGF=PD(75.7=50.0),PF0000822=EGF=PU(90.9=35.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGTCTGCAAGACCTGAGAC
R:
CATGTGACTGTGCATGCTCCT
Band lengths:
178-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]