DreINT0132467 @ danRer10
Intron Retention
Gene
ENSDARG00000042138 | selp
Description
selectin P [Source:ZFIN;Acc:ZDB-GENE-110107-2]
Coordinates
chr20:34054817-34056936:-
Coord C1 exon
chr20:34056568-34056936
Coord A exon
chr20:34054916-34056567
Coord C2 exon
chr20:34054817-34054915
Length
1652 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAAT
5' ss Score
3.81
3' ss Seq
TGAAATGTTATTGACTGCAGCCT
3' ss Score
4.23
Exon sequences
Seq C1 exon
TCAATGCCTGGACTTACCATTACAACATCGACAGTAAGTTGGACTGGACAGCAGCTCGTCAGTGGTGTCAAACGCATTTCACGGATATGGTGGCCATCCAAAACCAGGCAGAAATTGCATACCTCAACGAAATCCTCCCCTTCCATCGGGCATACTACTGGATTGGCATTAGGAAGATTGACGGCCATTGGACATGGGTTGGGACCAAAAAGCGCTTGACCGTCGAAGCAGCAAACTGGGCGACAAATGAACCGAATAACCAGGGGACTGGAGAAGACTGTGTGGAGATTTACATCAAGAGGAACAAAGACACTGCCAAGTGGAACGACGAGAGGTGCAGCAAGAAGAAAGCAACTGTGTGTTATTTAG
Seq A exon
GTGAATTTTAATTGTAAACATATTTAAAAAGTTGTATATTTATTCATGATTTAATATACCATAAATACTTATATGTGATAATTATATATGATAATCAGTGTGCGAATTACAAGTGGTTTGGGGGGATTGACCCCCTCATTAACGCTTGATCACCCCTAAAAGAGGTGAAAACAAGATGTATAGGGAGTCAGGTGTTTAATACTGAGAAATATTTAACTCTGATCAGTATTTTAAATTATAATGTTAATAATTAAAACAATAGATAATAAAAATACACATTGGGTGTCACAGTAGTGCAGTGGTTAGTACTGTCAGCTCACAGCAAGAAGGTTGAAGCTCCAGCTGGGTCAGTTGGCATTTCTGTGTGGAGTTTGTATGTTCTCCCCGTGCTGGCATGGGTATCCTTCAGGTGCTCCAGTTTTCCCAACAAGTTCAATGACATGCGCTATAGGTAAATTGGGTAGGCTAAATTGTCTGTAGTGTATGTATGTAAATGAGTGTGTATGGAGGTTTCCCAGTGATGGGTTGCCGCTGCGTAAAACATATGCTGGATAAGTGGGTGGTTCATTCCGCTGTGGTCAACCTAGATTAATAAAAAGACTAAGTTGAAAGGAAATTGAATGAATAAATAAATACACATCTGACCACACCTGTAACGGGTCAAACAATTGCTAATGTATAATTGCGCCAATCTATTCGAGAAAAAAGTCTGAAAGTGGCAGATCTAGAGCACCAATAAGACATTGTGTTCACAAGACTTTGTTTTCTTGTAAAATAGGTGTTTGTATCCATATTTAGCCTGAAAATAAAATCAACTTAGACGCATAGTTCGTAGTTTAACCTACAGTAACATCTGAAATAGCTAATCAGAGAATACTGCAGGTCAGAGTACACTAAATATTTCTCAAAATGCTGGACTGCAGGCACAGGACATCAACATGATGTCATGTTGACATTGTACCCCAACATCGTGGGGATGTTGGATTTTGTTTGGAAATGAAAATCAGGTTGACCTCAGAACACGACATCAGGCCAACGTCGATGTTCATTGTCCATCCTAAAATCAACCAAATATCAACATCTACTTATGTTTCACCTTAAAGTTGTGTGGAAGTTACCACTATGACATCCATCAGACGTTGGATTTTGGTCACTTTACAACACAAAATAAAATCAACCAAATATCAACGTTGTTTGATGTCGTTATTGGACTTCAAAATAACATTATCCTTAGATGCTGACTAGACATTAAATTTTGGTCACCTCACATCATGACCTAAATCTAACCTAATATTAACATCTTATGATGTTGTGTGCCTGCTGGGTGAAAACTTAAATATGTTTTATTAATAAACTAGATGTAATAAAAAATAAATACATAAATGACTTAAGCATGTATTAAACCAACTAACCGAAACAGTTGACCTCCTGATCATCAATGTATAATTCGCACACTATGACAAAATACATCAGTAATTATTTAAACAGACTTTTTTATGTGCATGGCTAAATGATAGTTTATAATGTAATTGTATAATTTATTTAAAGCATGGATTTTGAATGTTCAGTCAGGTATTTAACAGATAGCTATTTGCTGTTTAATTCACATTTAACTTTGTAGTATGATACAAATGAAATGTTATTGACTGCAG
Seq C2 exon
CCTCTTGCACTGAGATATCCTGCAGTGAGCATGCTAGGTGTGTGGAGACTATTGGGAACTACACATGTCAATGTGACGCTGGATTCATGGGTCCACGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042138:ENSDART00000133081:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=WD(100=90.3)
A:
NA
C2:
PF0000822=EGF=WD(100=91.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGTCAAACGCATTTCACGG
R:
GTCTCCACACACCTAGCATGC
Band lengths:
355-2007
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]