DreINT0051778 @ danRer10
Intron Retention
Gene
ENSDARG00000060106 | crb2a
Description
crumbs family member 2a [Source:ZFIN;Acc:ZDB-GENE-060612-1]
Coordinates
chr21:8389962-8391775:-
Coord C1 exon
chr21:8390807-8391775
Coord A exon
chr21:8390540-8390806
Coord C2 exon
chr21:8389962-8390539
Length
267 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGC
5' ss Score
5.42
3' ss Seq
GTCTTCTTTTGTTTTCTCAGATA
3' ss Score
10.59
Exon sequences
Seq C1 exon
GTGTGGAATGTGAGGTGAATATAGATGAGTGTGAGAGTGCCCCCTGCCTTAATGGAGGTGTATGCGAAGATGGAGTGGCTGAATACAAGTGTCACTGTGCAGAAGCTGAGGAAGGTCTGTTGCCATGGGGCGGACCCCAGTGCACGGTGCAGCTGCTTGGTTGCATTGGACATGAATGCCAAAATGGTGCCACCTGCTTGCCATGGTTGGATGGAGAGACACATGGACATACCTGTCTTTGTCCACCTGGTTTCTATGATGACGTATGCTCTATACAAACCACATTCTCCTTTTCCTCACCGAGGTTCTTTCTTATTGAGCTTCCATCACTTGAACGCAGAAGGAGAGAGACAGAACCTGAACACCCCCTAGGGGTCCGCTTGCGATTCCGCACCACACTGCCTGATATGTTGCTGTTTTTTCGTGGTAATGCGGAGTTCTTCCTATCCTTGGAGATTGTTGGGGGTGAGCTGCGTGCCAGGGCAACATCAAAGGAGGAAGGATCACTGGAGGCACAATTACCAGGACTTGTAAGTGACGGAGACTGGCATGAGGCAATTGTGAACATTAATGAACATGATATCAGGCTTGTCCTTCAAGTCAAAGGTGCAAACTGTAATAATCAAGCATGCAGAGTTGAAGACAAGCTACAAGATGGTCATGAAACTTTCTTGCACCATGACAGCCTCACCAAAGTGTATGTGGGAGGAGTACCAGAGGAGTATATTGGGCTTACCTTGAGCGGCCAAGGCTTTTTGGGTTGTATGGAGGATTTGCAGGTGGATGGTCATCCTGTCCTGCCACATGATCTGGGTCATGAGGAGGAGAGCGTTGAGTTGGGCTGTGTAAAGACAGAATGGTGCCAGGAAGATCCACAGCCCTGCTCTCAACAAGGCCATTGTGTTGATCTCTGGACGAGCTACCGCTGTGACTGTTACAGACCCCATTATGGACAGGACTGCAGCAAAG
Seq A exon
GTTTGCATAAACATATTAAACATTTAACACTTAACAGTTAGAGTAGAGAAGGGGTCCTGGAGTGCCAGTGTCTTGCATAGTTTAGCTCCAAGCCCAATCAGACACACCTGAGCCAAGTAATCAAGCTCTTACAAAGGTTGCGAGAAACATCCTGGCTTGTGTTTTGAGGCAAACTCTTCAAGACACCAGCCCTCCTTGAGTTTGACTGTCCTACAAAGTTTAGCCATGGCCCTTAATAAACTCACCTGTCTTCTTTTGTTTTCTCAG
Seq C2 exon
ATATGCCTACCTGGACATTTGGTCATGAGAACTCCACAAGTTTTCTTGCATTTGAACTGCTGTCTGATTTTGGAAGTAATTTTAGCGTGTCATTCTTCCTTCGATCCCTTAAATCAAGCGGATTATTATTTCAGCTACGTAGGTCAGGGGTTCAGGGGACAGAAGATGAACCTTATTTCACCATATACCTGGAAATGGGACGATTACAGGTGACCTCTATGGCGGAGTCACCCATTCTGTCATCACCAGTGTTTGTCTCCAATGGAGAAAAGCCACTGCTTCAGGTGGACATACAGGATGGTCAGGTTTTCTTTAATCATGGAGGATATCGCTACGGGCTTGGCTTACTGCCCGACTTGGAAGTTCTGGAGGGAGACTTGTTGTATATTGGTGGAGTTCCAGGTGAAGAGGGTGCAACTGTTTGGGGTGGTCATTTTAAGGGCTGTCTGCAAGACCTGAGACTGGACGACGTGCATCTGGATGTGGAAGACTGGAATAATACACTCAGTGAGAGCATCTATATCGCCAGTGATTCAGAAAATGTCCTTCCTGGGTGCACGAGTGATGACACTTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060106:ENSDART00000084378:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.000
Domain overlap (PFAM):
C1:
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)
A:
NA
C2:
PF0221019=Laminin_G_2=WD(100=64.8),PF0000822=EGF=PU(18.9=3.6)
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:
TGATCTCTGGACGAGCTACCG
R:
AATGGGTGACTCCGCCATAGA
Band lengths:
301-568
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]