DreINT0112346 @ danRer10
Intron Retention
Gene
ENSDARG00000060753 | pear1
Description
platelet endothelial aggregation receptor 1 [Source:ZFIN;Acc:ZDB-GENE-091230-1]
Coordinates
chr16:30525599-30526311:+
Coord C1 exon
chr16:30525599-30525700
Coord A exon
chr16:30525701-30526210
Coord C2 exon
chr16:30526211-30526311
Length
510 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACA
5' ss Score
5.49
3' ss Seq
TATTATTATTCTCTCTCCAGGAT
3' ss Score
10.73
Exon sequences
Seq C1 exon
TTTCACCACTTCAGTGAAGGAATCATACGCTCAGCCTTTCGACCAAATGTCTGAAGAGCCCTGCTCTGAACCCTGGAGCGCTAACAAATGCACCCGGCACAG
Seq A exon
GTGACATCCACAGACAAACACTCATGCACTCAAGCATTCACTCACAGCTACACCAAGCTGACTTAGACTAAACGCAGCATGAACGCTTTCATCCTTTCTTAGTGCGGAGGTTTTCAGTCTCCAGCTTAGGTCACTGGAGGGATTGTTTGGTTTGGCAGTGGAAGCTTAAAATTGCTTCAAATCCAAGTAATTGTGATGCTGGCGTACACACACGCTCCCTTTATTATAACACTGGCATGGAAACTCACTTTCCCCGGTTCCCAAAGGCCTTTTTAAGATTAATCTCAACTAAAGCGAATGGGAAGGGCACTGGCTGTTTAATGCATTTATAAAAATTATACTTTTCTGCATAAAAAGGTGCCAAAAGTTGATTCGCGGCAACTACTGAATCAGAAGTATCGCAACTGCAGCTGATCTCTAATAATAAAGTAATGACTATTGTGTGGTCTTGCGTTTGGATGGTGCATTTTTCCATGTTTATAATGGAGGTTATTATTATTCTCTCTCCAG
Seq C2 exon
GATCACTTATAAAACGCTTTATAGGCAGGTGGTGAAAATGGACTATCGTAGGAGGTATCAGTGCTGTCCTGGCTTTTACGAGAGCAGGAATAAATGCGTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060753:ENSDART00000137977:3
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:
NO
A:
NA
C2:
PF079748=EGF_2=PU(6.5=5.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGAAGGAATCATACGCTCAGC
R:
GACGCATTTATTCCTGCTCTCG
Band lengths:
190-700
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]