DreINT0051783 @ danRer10
Intron Retention
Gene
ENSDARG00000060081 | crb2b
Description
crumbs family member 2b [Source:ZFIN;Acc:ZDB-GENE-060610-1]
Coordinates
chr8:2839949-2842917:+
Coord C1 exon
chr8:2839949-2840819
Coord A exon
chr8:2840820-2842800
Coord C2 exon
chr8:2842801-2842917
Length
1981 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CATCCACTGTCCTCCGTCAGATG
3' ss Score
8.22
Exon sequences
Seq C1 exon
GTTTAGCCAACGCCACATTTGAAAACAACGCCCTGAAGTTCAGCGCAAACGGCTCATTTTTTGAGCCTGTGATGAGAATTTCAATGGATCTGCGGACGCGAGAAGAAAACGGGACCATTTTACGCTCCTCCAATGGAATCGAGTTCTTCTGCATGGGGCTACTAAACTCCTCCATCATCGTGAAGTTTCGTGATAGTAATAGTCTTGAAGTTCACGCTTTCATCAGCGACGTCACCGTTTCTGATGGAGAATGGCATAAAGTGGAGCTCTATGCATCCAGCTCGAGAATATCAGCGTTTCGTTGGCACATGTCAATTGATGGAAATCCTGCAGGATTCAGTCTCTCTCCTGCTGGAAATGTAGACTTTTTTAACTCCTCCACTGTGATGCTGGCAGAAAACTACACTGGGTGTTTGGGCGAAGTGCGCATCGGTGGAGTTCACCTATCATTTTTCGGACCTCTAAATGAAGAGGCGCCACAAAAAACTCAATTCATCCGAATCGGTGGGATGCTGGAGCCTCATTTAGGATGCATTGGATCTCCTTTATGTCTTTCCGAGCCCTGCCTGAATAATGGCACGTGCACGGATCTCTTTAATCTTGCCGTGTGTAAATGTGCTCCAGGATGGACCGGCGAGCGCTGCCAGGAGAATATTGACGAATGTGGAGAGCAGCCCTGTGTTCAGGGGTCCTGTCAGGATCTGCTGGGGGATTATGAGTGCCGGTGTCCGGTTGGATTTGGTGGGAAGAACTGTGATGTGGAGGTGGACCAGTGCAAGGATCATCAATGCGAGAATGGAGGGTCATGTGTGGCTACTGTCAGCGGATACACGTGTGTTTGTTTGCCTGGACACACAGGGCCATACTGCCG
Seq A exon
GTGAGTCTGAACAATGACTAAAGATATACAATTAAAGTCAGTTGGGTTATTAACCCTCCTGAATCATTAGCCCCCTGTATATTTTACTATATTTATACTATACAATTTCTGTTTAATGGAAAGAAGTTCTAAACATAATAGTTTTAATAACTTATTTCCAGTGTTGGGCAGTAGCGTCGCTACAAGTAGTGACGCTACTAGCTTAACTACATTCTCAGTAGCGTGATGTTAGCGTCGCTACTTTCTAAATCAAATAGTTTTTCAGTAGCAAAGCTATTTTATTAGTCAAGTAGCGCAGTCGCGTCCACACAAGCTTCATTTACCAATCACGGATCAATAAGTGATGCACCGACATTCACAGAGCTGTGAGGCCAGTGTCTAGCCGAAGAAAGTAAATCCATTTGAAAGGGAGACGGATGATTTCTTCTTCTTCCTGTTTTACGGTGTTCGACAACAAACTTTTTGGTGCGTTACTGCCACCTCTGGTGAAACTTGCTTGATGGAAAGATGACTGAGGGAGCGGAGTTATTACTAAAGCAGGATTCCTTGTGACCATACCTCGAGAAGTACATGCTAAGATGCAATAACTTAATTTCTGCACCACATTGAACCGTTTACTTATTGAACTGTACATACCCACTGCATATGGGCATTTGTAATTATGTACACACCCACTATACATATACACTGTAATCATGCTTATTTATCTGCATACTACTGATTATTAATAGCAACCTGTACATATATTCATATATTGTTACATATACACTTGTAATCATGTTTATCTATCTGCACACTACTGATTATTAATAGCAACCTGCACATATATTCATATATTGTAAATCTGTTCATAGCTTATCCAACCTGTATATAATGTTCATAGTACATCCATCCCATCTGTAAATATCACCATAGTTTTCTATAACTGCGCTTTATAATTTATTCCTGTATCCTGCACTTGCTGCTATTGCACTGCTGGTTAGACCTAAACTGCATTTCGTTGCATTGTACTTGTACATGTGTAATGACAATAAAGTTGAATCTAATCTAATCTACTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATCATAAGTATTTCCCTTTACTATAAATTACTATAGTATTTTAAATGTGTAACACCTGGTTTTATTTAAATTTTTGTTTTTGCTGTTATATACTATAATGTGTTTCTGTTTAGTACAGCATATTATTTACAGTAAATAATTTAACTGAACTATTCTGCTTCATATGTTTCATTGACAGATTTATTGAACACTAGGATAGAATTGACTTGGATTAAAGTTGCCTCGATTTAAAAATAAAATTGTAAAAATAGCTTGGATGTAGCTAAGCTATTTTTGCCATGTAGCTTTTAGCTTAGCTTGCTACATTTCCCAGGGGGTGGCTTTAGTGTAGTTAAGCTACATTTTAAGCAGAGTAGCTAATAGCTTAGCTCACTACATTTGTCAAGTAGCTTGCCCAACACTGCTCATTCATAATAACTGATTTATTTTATTTTTGCCATGATGACAGTAAATAATATTTGACTAGATATTTTCAAAATACTTGTACTTGGCTTAAAATGACATTTAAAGGCTTAACTAGGTTAAGTATGCAGGTTAGGGTAATTAGGCAAGTCATTGTATAACAGTGGTTTGTTCTGTAGACTATCCAAAACAAATATTGCTCAAGGGGGGCTAATAATATTGACCTTAAAATGGTTTTAAAGGTTTTAAATGGTTTTTGGAAATTTTTACAAAATGCTGTCAAAAATGCCAAAGATCGTTTGGGAAACATTTAAAAAGAAAAAAATAAATAAATTCACAAGAGGCCGAATAATTTAGTGTGAAATTTTCAGGACTTTGCACTTAGAAACACCCTTAAAAGTAAATGAAACACAACTCCCATGATTCCACACTCATCCACTGTCCTCCGTCAG
Seq C2 exon
ATGGCGGTTTCCTCCTCGTGAGTGTGATGTGGATCTGCAGTGTGAGAATGGAGGCGTTTGCAGTGAAGGATCATGGGGAGCCAACTGTACCTGCAGACCAGGATTCACTGGAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060081:ENSDART00000084305:11
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:
PF0221019=Laminin_G_2=WD(100=40.2),PF0000822=EGF=WD(100=10.7),PF0000822=EGF=WD(100=12.7),PF0000822=EGF=WD(100=10.7)
A:
NA
C2:
PF0000822=EGF=WD(100=80.0)
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:
CCTGCCTGAATAATGGCACGT
R:
TCCACATCACACTCACGAGGA
Band lengths:
343-2324
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]