DreINT0142007 @ danRer10
Intron Retention
Gene
ENSDARG00000062750 | si:ch73-74h11.1
Description
si:ch73-74h11.1 [Source:ZFIN;Acc:ZDB-GENE-091204-215]
Coordinates
chr20:17059374-17061342:-
Coord C1 exon
chr20:17061200-17061342
Coord A exon
chr20:17059596-17061199
Coord C2 exon
chr20:17059374-17059595
Length
1604 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGC
5' ss Score
2.46
3' ss Seq
TATTTTCTTTCACATTTTAGATG
3' ss Score
9.46
Exon sequences
Seq C1 exon
GTATGCCAAAGGTCACGACCCCGATAACTGGATAACCATTGATGAGGAAACTGCTGAGATTAAGCTGACAAAGGCTCCAGACAGAGAATCAAAGTTTTTGGTCAATGGAACCTACTTTGCAAAGATTATCTGCATGACTCAAG
Seq A exon
GCAAGCATCATCATTTTTCATTGGTTTCATTCATCACTGAAATTAATTCAATCTGTCAGGGAGCAAAATTTGGACATTTAAAAGAGAAAGAGAAAACCTAGATGCATAAATCTTTCAAAAATGTCTTTTTAAAATAACGAATGTGTGGTAAATATGTTGGTAAGAATGTTAATATTCTCCTTTAAATATTTATTATTTATTGAAACTTTTGTCGCTGCAATATTATTTCAGTAAAAAAAAAAAAGCTAATAGAGCCAACCAGTGATGCTGTACTTATCAAACAGTCAGTCACTGCATTTCTGAGAGTAAAAGTAATAAATAATAAAGTTTCAAAGTAAATGTTTCGTAGAATAATTACTTAAAGAGGACCTAACAATCATTTAAACAGGACCTATTTTTACAACATGTAAAAGTCTCTGATGTCCCTAGAGTGTGTAGGTGAAGATTCAGCTTAAAATACTCCACTATTAATGTTTTATAACTCTTAGAAACTCTCCCTTTTAGGCTTCAATAGTATCTGGATTCAGCCTTTGTGATGCAAGCTGAGATTGCATCACTTAGGGATGCAACGTCAGACACAATGCACTCAGGTAGGGTTAGGGGTGGGGTTAGGTGAGCGCATTAAAAAGCATTGGATGCAGCACAGATTGCACTGCACCAGGTCTGTATCCAGATCCCTCTCTTAGGCTTTGATCCCAATTGTGCCATTTTGATGACCGTTGCTTTAAATTCAAATGAGATTGTGCTGTCAGGCATCTTCAAAAAAGGAGGAGCTAAAAATACCTAGGTGTCAGCAAAGTGGCAGATTCAAAAACAAGACTAACCTATGCTAATGAGGGAAAGATCATCACAATTGGGCCGGGCTTTCCACCTCTGATGACATGTACAAAAGGAGAATGGCCGGCAGCTAGCTCTCTGCAACTCTCACATGGTCGCCCACTGAAGCTAAGCAGGGCTGCGCCCGGTCAGTACCTGGATGGGAGACCACATGGGAAAGCTAGGTTGCTGCCGGAAGTGGTGTTAGTGAGGCCAGCAGGGGGCGCCCAACCTGCGGTCTGTGTAGGTCCATCCAGGCCAAATCTGCCCACTGGCCTTTGTCCATCATGGCCTCCTAACCATCCCCATATTCCAATTGGCTTCATCGCTGTCTCCTCTCCACCAATCAGCTGGTGTGTGGTGTGCGGTCTGGTGCAAAATGGCTGCCGTCGCGTCATCCAGGTGGATGCTGCACACTGGTGGTGGATGAGGAGATTTCCCCCATTGTGTGTAAAGCGCTTTGAGTGCCCAGAAAATATATAAATATATATAATGTAAGGAATTATTATTATTATTATTAATTATCAAAGTGTTTCTGCAGACTGTTCTGATCAAGTGTAATTAAAAAAATAGAATGAATGAATTTTCATGATTAGAAACTGGTTATATTCAGAGACTGTTGCCACACAGCTGTGTTTAAATCCCTTTAAAAGTGATTATAATATTAATAGGTGCCTTTTAAGATATTCACTTTCGTATTAAAATGCACAAACAACAAGGCCTTATCGCATTGACTAAGTTGGAAAGTTTCCTTAATTAATACCTACATATTTTCTTTCACATTTTAG
Seq C2 exon
ATGTGCCAGCTAAAACCGCTACCGGCACAATAGCATTAAAGGTGGAGGATACCAATGACCACTGCCCCACACTGACCAGCTGCTATCATCAAACTTGTGATAACAATAAAGTGGTAAATGTCACAGCTTTCGATGAGGACGCCGATCCAAACGCCACACCTTTCCAATTTGCTCTGATAGAAGAGGAGAGTGTCGGAAAATGGCAGATGGTGCCAATAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062750:ENSDART00000148312:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.531 A=NA C2=0.053
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(49.5=100)
A:
NA
C2:
PF0002812=Cadherin=PD(15.5=20.0),PF0002812=Cadherin=PU(52.3=61.3)
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:
TCACGACCCCGATAACTGGAT
R:
GCACCATCTGCCATTTTCCGA
Band lengths:
344-1948
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]