DreINT0051777 @ danRer10
Intron Retention
Gene
ENSDARG00000060106 | crb2a
Description
crumbs family member 2a [Source:ZFIN;Acc:ZDB-GENE-060612-1]
Coordinates
chr21:8390807-8391963:-
Coord C1 exon
chr21:8391850-8391963
Coord A exon
chr21:8391776-8391849
Coord C2 exon
chr21:8390807-8391775
Length
74 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
CTTGGGTCTGTCTTACTCAGGTG
3' ss Score
8.61
Exon sequences
Seq C1 exon
GAGAGAATTGTTCAGTGAACATAAATGAATGTGTGTCCGAGCCATGTCACAATGGTGGAAGCTGTAAGGATTTGGTTAACGGATACATGTGTGAATGCCCAGAGGGATTCACAG
Seq A exon
GTTAGTTTTTACAAATAAGAAAGCTTTTACATTTGTATCTGTTCATATTGCTAACTTGGGTCTGTCTTACTCAG
Seq C2 exon
GTGTGGAATGTGAGGTGAATATAGATGAGTGTGAGAGTGCCCCCTGCCTTAATGGAGGTGTATGCGAAGATGGAGTGGCTGAATACAAGTGTCACTGTGCAGAAGCTGAGGAAGGTCTGTTGCCATGGGGCGGACCCCAGTGCACGGTGCAGCTGCTTGGTTGCATTGGACATGAATGCCAAAATGGTGCCACCTGCTTGCCATGGTTGGATGGAGAGACACATGGACATACCTGTCTTTGTCCACCTGGTTTCTATGATGACGTATGCTCTATACAAACCACATTCTCCTTTTCCTCACCGAGGTTCTTTCTTATTGAGCTTCCATCACTTGAACGCAGAAGGAGAGAGACAGAACCTGAACACCCCCTAGGGGTCCGCTTGCGATTCCGCACCACACTGCCTGATATGTTGCTGTTTTTTCGTGGTAATGCGGAGTTCTTCCTATCCTTGGAGATTGTTGGGGGTGAGCTGCGTGCCAGGGCAACATCAAAGGAGGAAGGATCACTGGAGGCACAATTACCAGGACTTGTAAGTGACGGAGACTGGCATGAGGCAATTGTGAACATTAATGAACATGATATCAGGCTTGTCCTTCAAGTCAAAGGTGCAAACTGTAATAATCAAGCATGCAGAGTTGAAGACAAGCTACAAGATGGTCATGAAACTTTCTTGCACCATGACAGCCTCACCAAAGTGTATGTGGGAGGAGTACCAGAGGAGTATATTGGGCTTACCTTGAGCGGCCAAGGCTTTTTGGGTTGTATGGAGGATTTGCAGGTGGATGGTCATCCTGTCCTGCCACATGATCTGGGTCATGAGGAGGAGAGCGTTGAGTTGGGCTGTGTAAAGACAGAATGGTGCCAGGAAGATCCACAGCCCTGCTCTCAACAAGGCCATTGTGTTGATCTCTGGACGAGCTACCGCTGTGACTGTTACAGACCCCATTATGGACAGGACTGCAGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060106:ENSDART00000084378:6
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=0.034
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(4.3=5.1),PF0000822=EGF=PU(93.3=71.8)
A:
NA
C2:
PF0000822=EGF=PD(3.3=0.3),PF0000822=EGF=WD(100=9.6),PF0000822=EGF=WD(100=10.5),PF0221019=Laminin_G_2=WD(100=41.7),PF079748=EGF_2=WD(100=10.5)
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:
AATGTGTGTCCGAGCCATGTC
R:
ATTCAGCCACTCCATCTTCGC
Band lengths:
171-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]