DreINT0132478 @ danRer10
Intron Retention
Gene
ENSDARG00000042138 | selp
Description
selectin P [Source:ZFIN;Acc:ZDB-GENE-110107-2]
Coordinates
chr20:34050603-34051354:-
Coord C1 exon
chr20:34051169-34051354
Coord A exon
chr20:34050789-34051168
Coord C2 exon
chr20:34050603-34050788
Length
380 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
TGCTGTTTTCCTCTTTTCAGTCA
3' ss Score
9.74
Exon sequences
Seq C1 exon
CTGTTGCTTGTGACCCTCTCGTGACCCCTGTGAATAGCAACCTGACCTGTGCCAATCCATTAGGGAAGTTCTCTTTTCGTACTTCTTGTGAGGTTATTTGTGAGGTGGGATACAAACTCAGAGGAGATACAACACTCAACTGTCTGAGTAATGGCAACTGGTCAGCACCAACGCCTGCATGTAAAG
Seq A exon
GTGGGGTTCAGCGGGTTTTAATCAATCATTTAAATCAAATAATCACAATCACTGAAATGTCATGTTATGGTATGAAACTGAATGAAACATAGTTCTATCATTACTATTGCAAAAACATTTGAGTACAATCTTAGAGAATAAGTGACAGAAAGAATTGACTGTAGGAGCATTGTAATACAACATCAGTTATTTATATATCTAAAATGTATAGGGTACAAAATAGTTCTCGACAAGACTGAGTTGTTAATAAATCCAAAATGTATAATCTCCTCTTGCAGCAAACAAAATTTCTCGACAGAGTGACGTCACATATTTACCATGAAATAATTATTAACAGATTGGTATAAAGGCATGTCCTCATGCTGTTTTCCTCTTTTCAG
Seq C2 exon
TCATAAGATGTGAAGCTCTGGAGTCTGTTCATCATGGTTCTGTACACTGTCATGACCTGCTGGAGGAGTTCAGCTATGGCTCTGAGTGCTGGCTTGAGTGTGAAGCTGGATTTACTTTGAATGGAACTAATTCCACTTACTGCACCTCACAAGGGAAGTGGAAGCAGGAGCTTTCTGTCTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042138:ENSDART00000133081:8
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:
PF0008415=Sushi=WD(100=92.1)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTTGCTTGTGACCCTCTCG
R:
GCTTCCACTTCCCTTGTGAGG
Band lengths:
351-731
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]