DreINT0132473 @ danRer10
Intron Retention
Gene
ENSDARG00000042138 | selp
Description
selectin P [Source:ZFIN;Acc:ZDB-GENE-110107-2]
Coordinates
chr20:34053971-34054732:-
Coord C1 exon
chr20:34054547-34054732
Coord A exon
chr20:34054160-34054546
Coord C2 exon
chr20:34053971-34054159
Length
387 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGG
5' ss Score
7
3' ss Seq
AAAATGTTGTACCATTACAGCTG
3' ss Score
6.36
Exon sequences
Seq C1 exon
TTGTCCAGTGCCAGCCAGTTGAAAACCCACAGCAAGGTCTTGTGAAGTGTGACGGCGCCTTTGGAGAGTTTAACTTTAACTCATCATGCCAGTTCCAATGTGCCACTGGTTTCAATCTGGTGGGGGCAGAGAGGATACACTGCTTGACAACAGGACATTGGAACGACACCCTTCCTGTTTGTCAGG
Seq A exon
GTATGGACCATACTGGGTTGCTATGCATAAATTGTACTTCACAGCTTAAAAATCATTGTTGATTCACATAACATTCATGGAAATTTTCCAGTCCACAAAAGGTTGTTAAAGATAAGTTCTTCTTTATTTTAAAGAGTGTTTAGTAACTCTATTTATTAGCTTATATGTGAGCAATGGATTTATGTCTGCATGTCTACAGTAGAGATGTCCTGTGCTGATGACCAGTTTTTTTTTTGCAGGTCTCTTTCAAATTTTTTGTGAAAAGTACTAATAATTTCTTCTTTTTTTTTCAGGGTGGGTAATAAACAAAAAAAACTATTTGAATGTTATTGACAATTTGTTGTTTGTTGTTTGATTTTACTTGTTAAAAATGTTGTACCATTACAG
Seq C2 exon
CTGTCAAATGTCAGGCAATCATTGATGCCCCTCGTGGTTGGACAATGATCTGCACTCATCCGCTTTCCATGAATAGCTTCAACTCCAGCTGTGAGTTTGAGTGTAAGGAGGGTTTTGAGCTCAATGGTTCAAAGACAACCTGGTGTGACCACACTGGCCACTGGACAGACAAAGCCCCCACTTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042138:ENSDART00000133081:3
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=92.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCCACAGCAAGGTCTTGTG
R:
CAAGTGGGGGCTTTGTCTGTC
Band lengths:
347-734
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]