DreINT0131729 @ danRer10
Intron Retention
Gene
ENSDARG00000016611 | scrn3
Description
secernin 3 [Source:ZFIN;Acc:ZDB-GENE-030131-4783]
Coordinates
chr9:2510386-2514096:-
Coord C1 exon
chr9:2513916-2514096
Coord A exon
chr9:2511556-2513915
Coord C2 exon
chr9:2510386-2511555
Length
2360 bp
Sequences
Splice sites
5' ss Seq
GGGGTCAGC
5' ss Score
1.33
3' ss Seq
ATGGATGTTTGTGTGTTTAGGAG
3' ss Score
6.27
Exon sequences
Seq C1 exon
GTCTGTGTTTAAGCCGTTTGTGTTTGTGTCTGACGTGCCGCCGCTGAAACACACCAGTTCTCCATGTTTCGGGGAGGAGGATCCAGTGAAGAAGAAGCCCCGTTTCCAGAGCAAACCCAACCGCAAACACCCGCTGTTCCTGAAGCACGAGGTGGCGGCGGCCATCATCGACAGCTCTGGG
Seq A exon
GTCAGCTGAAAACACCTCCACATCGCAAACGTGTCTGAGATGTCTGATAATGAATTGGGCAACTTTTCGAGCAATGTTGCAACCAGGTCAGACACAGGGCAACTAATTAGGGAAATGTGTTAGAGATACAATATTGTTGCATGTTTTTAATAGAAAAGTAGCCATCGTTCTGCAAAATTGAACTGAAAATCATTGCTCTAAAAGTTGTCGCATGCATCATCAGCATCGCATTACGCAGGGTTGCCAAGTTTTCACAACAGAAGTAGCCCAGTAGTCATTCCAACTAGCTCAATCTCAAACCGTATGCAATATTCATTCATTCAATCATTTCCCTACGGCTTAGTCCCTGATTTCTCAGGGGTCGTCTCAGCGGAATGAACCAGTAATTACACCATTAGCATCACATTTAGGCAGGGTTGCCAGGTTTTCACAACAGAAGTAGCCCAGTGGCCACTTAAAACAAGCCCAATCCCAAACTGTACGCAATATTCATTCACTTATTTTCCTTTGGCTTAGTCTCTGATTTAGTAGGGATCGCCACAGCGGAATGAACCACTAATTACACCATCAACATCACATTTGTGCAGGTTTGCCAGGCTTTCACAACAGAAGTAGCTCAGTGACCATTCCAACTAGCCCAATCCCAAACTGTACACAATATTCATTCACTTATTTTCCTTTGGCTTAGTCTCTGATTTATTAGGGTTCGCCACAGCGGAATGAACCATCAATTACACCATCAGCATCACATTTTGGCAGGATTGCCAGGGTCTTACAACAGAAGTAGCCTAGTGGCCACTAAAAAAAGTAGCCCAATGAACACTCAAACTAGCCAAATCCCAAACTGTACCCAGCATTCATTCATACTTTATTCATCGGCTTAGTCTCTAATAATTATTAGGGGTCACCACAGTGGAATGAACCACCAATTACACCATCAGCATCACAATTAGGCAGATTTGCCAGGTTTTCACAACAGAAGTAGCCCAGTGACCATTCCAAATAGCCCAATCCCAAATTGTACACAATATTCATTCACTTATTTTCCTTTGGCTTAGTCTCTGATTTATTAGGGGTCGCCACAGCAGAATGAACCATCAATTACACCATCAGCATCACATTTTGGCAGGGTTGCCAGGTTTTCACTACAGATGTAACCAAGTGGCCACTAAAAAAGTAGAACAATGAACATTCAAACTAGCCAAATCCCAAACTGTACGCAGCATTCATTCAATCATTTTCCTTTGACTTAGTCCCTGGTTTATTAAGGGTTGCCACAGCGGAATGAACCACTAATTACACCATCAGCATCACATTTGTGCAGGGTTGCCAGGTTTTCACAACAAAGTAGCTCAGTGACCATTCCAATTAGCCCAATCCCAAACTGCACCCAATATTCATTCACTTATTTTCCTTTGGCTTAGTCCCTGGTTTATTAAGGGTCGCCACAGCGGAATGAACCACTAATTACACCATCAGGATCACATTTGTGTAGGGTTGCCAGGTTTTCACAACAAAAGTAGCTTGGTGACCATTCCAATTAGCCCAATCCCAAACTGTACACAATATACATTCGTTCATTTTCCTGCGGCTTAGTCCCTGATTTATTTGCGGATGAAACAGCGGAATGAACCACCAATGACACCACATACAAAAAAACAAAAGTAGCACAGTAACTACTCAAAAGTAGCCCAATGACTATTCCATTTAGCCCAATCCCAAACTGTACGCAATATTCATTCATTTTCCCTCATCTTAGTCCCTGATTTATTGGTGGACACCACAGTGGAATGAACCACTAATTACGCTATCAGCATCACATTTGGGCAGGGTTGCTAGGTTTTTACAATAGAAGTAGCCCAGTAATCACTCAAAACTAGCCCAATGACCCTCCTTCAGCTTAGTCTCTGATTTATTTGGGCTCGCCACAGCGGAATGAACCACCATTTACACCATCAGCATCACATTTAGGCAGGTTTTCATAACAGAAGCAGCCCAGTAGCCACTTAAAACTAGCCCAATGACCATACCAACTAGCCCAATCCCAAACTGTACGCAACATTCATTCATTCATTTTCTTTCGGCTCAGTCCCTGATTTATTAGAGGTCGCCACAGCAGAATGAACCACCAATTACTAACAATTAAACCATCAGCATCACATTTAAGCAGGGTTGCCAGGTTTTCAATATAAACAAACTTGTATATAAACTGAAACACTTGATTTTAGACCACAGTAATTCATGAGTATGGTGCAGGGCCTCCTTTTACAGCCAATACAGCATCAGTTGGTCTTGGGAATGACAGATACAAGTCCTGCACAGTGGCCAGAGGAGTAACGAATGGATGTTTGTGTGTTTAG
Seq C2 exon
GAGAGAGGACAGAAGATAGAGAAGGAGATGAGAGATCTGGAGAAGCAGAAGCTGGAGGAGATGGAGAAATATCTGACTGAGGGCGTGGAAGACTCTTCCCTGCTGGTTCATCTCTTCACAGACACCGTAGAGGAGGAGTTCAGTGTTTACAGCAGCGCATGACTATATATTCACACGCATGGCCACCATATAAACACTAATAACACACATTTACAGTTTGGAATTATGCCATTAAAATAGGTGACTCACAAGTGTTACGAACAGAATCTTATATTGTGTGAGATTTATCTTGTTTGCATGTTTGTAAAGTTAATAATTTCAGAGTTGTTTGTAAATGTAATTAAGGTAACACTTTAGTTTGTTACTTTAGTTTGGTTTATTACCTGTAAATTATTATGATATTGGCTGATTATTAGCACTTATAAAGTATGATCTTATTCTACATCCCTAGTGCCGGTTTGTAATTTATTGAGCTAAAAGTCATAGTGAGAACTGTACCTTAAACTAAAGCACGACTAATGAATAATTACATCATTAACAAGGGATTAAATTGGATTTGTAGTTATTCTGTAATGATACAGTTGAAAACAAATGAACATTTTCACTGGAAGGATAATAATAAGGATATGCTGTATCCCTTAATCTTAATGAAAAGACAATATCAATTGAACTCTTTTAATTCCTTAAATTGGAGTCAGACTTTGAGTTAGATTTTTTTGTAGTGCAACAAGTCACCTTATTCAGTTGAAAATATTTGTTTTTAAATATTCAGCAAAATAAATTTGCATATATTATATATTACTCTAGCTATTCCGAACTGATTTATACAGACCTGTTGACTTTACTTACAGTATTTAGGGCAAGTACATTATAACTATAATAGAATTACCCATAAATCAACAGTAATCTTTTACTTCCCTTAAAAAAAATGTTCATTCTTTAGAGTTATTGTTCGTTGTTAGTTCATGCTAACCAAATGGGAGCTTACTGTAAAGTAAATATAATTTAATATATACTTATATAACTCAAACACAACTTGAATACCAAGATTCTCCTGCTGGACTTTTCTGTGCAAATGTGAAAATTGTCGCCCTCGTGTGTCTGTGAGAGGAAACACAAGCACTGAAAATACACACTTCATAAGGGAAATTAAAATCTTAATTATATCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016611:ENSDART00000016710:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.361 A=NA C2=0.358
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]