DreINT0051762 @ danRer10
Intron Retention
Gene
ENSDARG00000100506 | crb1
Description
crumbs family member 1, photoreceptor morphogenesis associated [Source:ZFIN;Acc:ZDB-GENE-050208-382]
Coordinates
chr22:23497351-23499609:-
Coord C1 exon
chr22:23499418-23499609
Coord A exon
chr22:23497494-23499417
Coord C2 exon
chr22:23497351-23497493
Length
1924 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGA
5' ss Score
7
3' ss Seq
GTATAGCCTATATGTTGTAGCTA
3' ss Score
1.55
Exon sequences
Seq C1 exon
CAGCTGTGAGCTGGAGATTGATGAGTGTCAGTCACAGCCCTGTCTCCACGGCGCCAGTTGCCATGACCACATCAATGGCTTCACGTGCACATGCCTGGCGGGTTTCCAGGGCGAGAGCTGTGAAATCAACATCGACGAGTGCCGTGACCAGCCATGCCAAAACGGGGCTCTGTGTGTGGATGAAATCAATAG
Seq A exon
GTAGGATATATTTCCATGCTGCCATTTTATTTTCGCTCAAGGTTTACTTAGTGGAAATGAAAAATTCAATTAATTTCTACTGTTCTTTTGTTTCATTTAGTTCATCTTAGGTCAGACAAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATACATATAACAAAACCATAAAACCACACTCTAAAGTATCAGGAAAACACAATTATACACTAATTAGGCACATGAAAAATAAGAAAACATATCACATACATACACAAATGTATACATAGGCATGGGATGAGAACCTGTTTCAAGGTTTACAGCGGTTCGGACAAAGTCAAGGTTTTAAAACCGCTAAAATGTTCTGTTATAACGTTCCTAAGGTGTTTTGTTATGTGTTGTAAAGAAAACCGTGCTTTCGAAGTTGAAGATAGCAGAAGTCAATGATTTATTTTAATTATTTACTGTTCCAAAATATTATGAATGTTTTCTAAAATGAAATATGTTGCTATACAGTTAAAGTCAGAAATATTAAACCCCCTGAATTATTAGCCCTCATTTCTAATTACTGATTTATTTTATCTTTGCCATGATGACAGTACATAATATTTGACTAGATATTTTTCAAGACACTTCTTAAAGTGACATTTAAAGGCTTAACTAGGTTAATTAGATTAACTAGGTAGGATAGTGTAATTAGGCAAGTTATTGTATAACGGTGGTTTATTCTGTAGACTATGTATAACGGTGGTTTATTCTGTAGACTATCGAAAAAAATATATAGCTTAAAGGGGCTAATAATATTGACCTTAAAATGGTTTTTAAAAAATTAAGAACTGCTTTTATTTCAGCCAAAATAAAACAAATAAGAAGAAAAAATATTTTCTGACATACTGTGAAAATTTCCTTGCTCTATTAAACACAATTCAGAAATTATTTGTAAAAGAAAAACACTTTCAAAGGGGGGGTGGGGGACTAATAAATCTGACTTTAACTGTATATTGTTAAATGTGATAAAAAAAAATAAAAAAAGAACAAAAGAATTTCAAGCAGCAAGAGTTTATATATAGTTCTGTCTGATTCTCGAATTATTATTAAGACCTATCACGCTGCTATCAGCCAATCAGATTCGAGAATCAGACAGAACTATATATAAACTCTTGCTGCTTGAAATTTTTTTTGTTCGTTCATCTTTTCATCTCTCAACTCTGTCAAACTGAATAAAAATATTAGGTTAAACTTTGTATGACTAAAAAAAAAAAAAAACAAGTTGAAACCCAATTCATTTAATAAAATAAGTTAAAGTAACATAAAAATGTTGTCATTCTTTGGTCATATAATTTGGTAGAGGTATATTTGTAAATATGTCCTTGTTCATGACAGCTTTTTAAAATGTAAACAAATATAATTAAATCATAAAATATGCTGTATACCATACTGTAATAATTGATTTACTGTATATGTTTATTAAATATTTCCAAAGTGTTATAATGGAGAGAAGATATTTCAACACAATTTTTAAAAACACAAGTTTTAATAACTCATCTCTGATAACTAATTTCTTTAGTCTTTACCATAATAATAGTACATAATATATTTCTAATAATTTTGCAAGGTACTAGTTTTCAGCTTAGTGCCGTTTTAAGGCCTTAACTAGGTTAACTACAAGTTAGATCAGTTAGTCACTGTTCAGTAGCCAACCAGTGCTTAACACACTGCTTAAATAAACTGCAGTAACCATCTTAATGATTCTAAAATAGGTTAATTCATATAGTGTTTTTCATTGCTGGAATGTGTTCTCATTAGCTTCACCTATTGTAATATAATAACACAGCAAATGTAAGATAATTTTGGTAGTGAAATATGCATGCATGTATAAATAGTATAGCCTATATGTTGTAG
Seq C2 exon
CTACCGCTGTGACTGCTCACAGACTGCTAACTTCACTGGTGTTGACTGTGAGATCCCGCCTCCGCCCTGCTGGTCTCAACCCTGCCTCAACAGCGCCCTCTGTGAGAATCAACAGGAGAACTACACCTGCAACTGCTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100506:ENSDART00000166915:3
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:
PF0000822=EGF=PD(6.5=3.0),PF0000822=EGF=WD(100=47.0),PF0000822=EGF=PU(51.5=25.8)
A:
NA
C2:
PF0000822=EGF=PD(45.5=30.6),PF0000822=EGF=PU(81.8=55.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGTGAGCTGGAGATTGATGA
R:
CCAGCAGTTGCAGGTGTAGTT
Band lengths:
329-2253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]