DreINT0051763 @ danRer10
Intron Retention
Gene
ENSDARG00000100506 | crb1
Description
crumbs family member 1, photoreceptor morphogenesis associated [Source:ZFIN;Acc:ZDB-GENE-050208-382]
Coordinates
chr22:23495533-23497493:-
Coord C1 exon
chr22:23497351-23497493
Coord A exon
chr22:23495716-23497350
Coord C2 exon
chr22:23495533-23495715
Length
1635 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACT
5' ss Score
6.6
3' ss Seq
TCATATTTGTGTTGTTCCAGGGT
3' ss Score
9.02
Exon sequences
Seq C1 exon
CTACCGCTGTGACTGCTCACAGACTGCTAACTTCACTGGTGTTGACTGTGAGATCCCGCCTCCGCCCTGCTGGTCTCAACCCTGCCTCAACAGCGCCCTCTGTGAGAATCAACAGGAGAACTACACCTGCAACTGCTGGCCAG
Seq A exon
GTGACTCGCAGAATGACTTGTATATCAAGTTAAAGTATGATTTTGCATTAAACGGAATTGATGGATTGGATTTGGAAATGTATCTGGTAACATCTGATTAAAAATGTTTATGTAGGCTAATATCCTCCTGAGACCCATTTTTTTCTGTGATTCCCTACATCCTTTGGCTTAAAAAAAGTTTTATTTAGAGTTTTTACATTTTGTTTTTATTTTTAATTTTACAGCATGCCCACTGTAGTGGACCACGGGACCATTTTAGTTTGAAACGACCGCCAAACTCAGACAACAAAGCTGTCCAGGATGTGGCTGTAAAGGGATATTAATCCAATATTAATGTAACAAAAATTAAACAAAAGCCATTTTTTCCTTTTATTTTTAATTTCCTGAAACAGCTTAGTCTGAGAGAGCCAAAAAAAAAGAAGAAGTGATGTTAATTCAAAATAAATTTAAAATAAAAGTGATTTAAAACTGATTGTCATTCACTAATTGTCTCTAATTCTCTGATTGTCAAACTTTGTCAGAGTCCCCCTCAACTATCTTATCATCTCTGCTTCAGTTCTGCCTCCTACAACATGCAGTCACTAATTACATTAAGATGTTCCTGTTGTCCACTATAGTGGACATTTTAAAAAGGATGATATTTTGAAACACAAACAAGTTAACTGCTTTGAAAGCTAAATATATTGTTCCTGACACTTTAATAAACATATATATCTAATAATAATAGTAAAAAAAAAACTTTTAAAAAGTTAAAGTTTACATACTTCTCTCCTCTTCATGAAATGTGCTTTTTTTATGTCGGCCATTTTGGATGAAGTGTAAGAAGTGGTTCCTAGCATGCCAGCCAATCAAATGACATATCACCAGAAAGCCCGGGATGTCCTCTGAACAGTACAACAGGACTTGACAGAGTAGCTCAAAAAATTCTAAAAAAATTCATGAAAACACAATGTCCACTACAGAGGACACAAGTCAATGGGTGGGGTCTCTCAATCTTTAATTTCAGAAATCCCCTTAAAGTTACAAATCATTCAAAAAAGTAAAGGGTTACTCATGCTCCACTTGGGAGATTATTTCTTCTGTAGAACACAAAGAAATCTTGGGGGGAGACTACCATTGACTCCCATAGTATTTTCTTTGTTTTATTCCAACTACAGATGTCAGTTCTTACGTTTTATTTTTGAACAACTTAATTGTTTTATGTTCAATCCACTTACATTTATAAAAATAATTAAGGTAACTTAATCGATTTTATTGGTACAACATGAAAGAATTAAATTAACTTATTAGTTTTTACAAATTTTAGTCAATTACACATAAAACAATTAAGTTGTCCCCAAAAAAACTTAAGAACTGTGTTGTTTCAGCTCATTTAAAATGAGTAGTTTGAACAAACATCCTTTTTAGTGTGTAGAAGGAATACTGCTCTGGCTCAAAGTTAACAAGAATTATTTATATTATACATTAAATGATTCATTACATTGTGTTTTATTAACATCTATACCCCTAGCCTAAACCTATCTTCACATTAATGTAAAAACAGTAATCATTGTTGTAGTGTCACAAAAATTGTGTATATTGATGTGCGTATACCACAGCATCATGAGGCTTTCTGTCATATTTGTGTTGTTCCAG
Seq C2 exon
GGTTTGAAGGGCGTAACTGTGAGGTAGACGTCAGTGAATGTGAAAGCAATCCCTGTGTGAATGAAGGCATTTGCATGGAGCTTTCTTGGAAAACACTTTACGGTACTGAGCCCCTGTTTACAGCTAGATACAATCCCAGACTTGCTTCCGGGTTCATCTGCAAGTGTCCGCCAGGATTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100506:ENSDART00000166915:4
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(45.5=30.6),PF0000822=EGF=PU(81.8=55.1)
A:
NA
C2:
PF0000822=EGF=PD(15.2=8.1),PF0000822=EGF=PU(94.1=77.4)
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:
CTACCGCTGTGACTGCTCAC
R:
CTGAGAATCCTGGCGGACACT
Band lengths:
326-1961
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]