DreINT0051780 @ danRer10
Intron Retention
Gene
ENSDARG00000060106 | crb2a
Description
crumbs family member 2a [Source:ZFIN;Acc:ZDB-GENE-060612-1]
Coordinates
chr21:8388723-8389872:-
Coord C1 exon
chr21:8389707-8389872
Coord A exon
chr21:8389594-8389706
Coord C2 exon
chr21:8388723-8389593
Length
113 bp
Sequences
Splice sites
5' ss Seq
AATGTACGA
5' ss Score
2.98
3' ss Seq
GTTTTGTTATGTCTTACCAGGTA
3' ss Score
8.93
Exon sequences
Seq C1 exon
ATGGAGCCTTGCTTAAATGGAGGAGCATGCACAGTCACATGGAATGACTTTATTTGTTCCTGTCCAAAGGATTTCACAGGAAAGACATGTGAAACCAGAGTTTGGTGTGTCAGCGATCCATGCATAAATGGTGGACACTGCGTAGATCTGTTGGATGGTTTTGAAT
Seq A exon
GTACGAAGCAGATTTTTGACAATTTCTTGATTGCTTGCTAAAGACTAATAGTAAATTTAAGTCTATAAAAGTGGATATAAGTTGTAACAAAATGTTTTGTTATGTCTTACCAG
Seq C2 exon
GTATAGCGAACGCAACCTTTGACAATACCCCTTTACACTACAGTGCTAAGGGATCTCTACTTGACCCAGTGACCAATGTTACCATGAAGCTCCGTACAAGACAGGAAAATGGTGTACTACTTCGTGCATGGCGTGGGGAGGAGCTTCTACTGATTGGTCTGTTGGATTCATCCATTCATGTGGAGATTCACACAGCGAACAGTGTAGAACCAGTGAAGTTCTCTGGACAGAGACGCATAGCAGATGGAAACTGGCATCGACTGCTGTTTGCGATGGCCCACCCAGAGCATGATGCGTCACAGTGGTTCGTTTTGGTGGATGGCATCATCGATGGTAGCAGTGCCCCAGTGCTTGCAGGTAGTTTAAATTTTCTTAAAGACATATCAAGCGAGGTTGCACTGGCCGAGACCTTCACAGGATGTCTAGGTGCTGTCAGAGTGGGTGGAGTTTACCTTCCATTTGTGGACAATACCAAATCACCCCAAACAACACGGTTTTGGCGAAGACCAGATGAGCATGTACACTTGGGATGCTTTGGGGCACCAGTCTGCCGCTCTCATCCCTGTAGGCGTGGTGGCACATGTGTGGATCTCTTCAATAAATTTGGTTGTAAGTGCCCATCTGGCTGGGAAGGGAACATTTGTGAGAAGGAAATAGACGAGTGTATCTCGGGACCTTGCCTTCATGGCAAGTGCAAGGACAAGCTTAATGGGTTTGACTGCTTATGTCACCCAGGATACGCAGGACCTACATGTTCAGAAAACATAGATGACTGCAAAGGATCGAGGTGTAAGAATGGAGGAACCTGTGTTGATGGAGTTAATGACTTTACCTGCATCTGCCCACCTAAGTACAGCGGAACACGTTGTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060106:ENSDART00000084378:9
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=0.010
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(75.7=50.0),PF0000822=EGF=PU(90.9=35.7)
A:
NA
C2:
PF0000822=EGF=PD(4.5=0.3),PF0221019=Laminin_G_2=WD(100=41.2),PF0000822=EGF=WD(100=10.3),PF0000822=EGF=WD(100=12.0),PF0000822=EGF=WD(100=13.1)
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:
AGGAGCATGCACAGTCACATG
R:
TCCTGTCTTGTACGGAGCTTCA
Band lengths:
252-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]