RnoINT0109563 @ rn6
Intron Retention
Gene
ENSRNOG00000014243 | Pear1
Description
platelet endothelial aggregation receptor 1 [Source:RGD Symbol;Acc:1305653]
Coordinates
chr2:187114217-187116331:-
Coord C1 exon
chr2:187116086-187116331
Coord A exon
chr2:187115467-187116085
Coord C2 exon
chr2:187114217-187115466
Length
619 bp
Sequences
Splice sites
5' ss Seq
GTAGTGAGC
5' ss Score
1.86
3' ss Seq
CCTGTCCTCTCTGTCCTCAGATG
3' ss Score
13.74
Exon sequences
Seq C1 exon
GTCCCATCTCTGAAGAAGGACTAGGGGCAAGCGTTATGTCCCTGAGCAGTGAGAACCCCTATGCGACCATCCGAGACCTGCCCGGCCTGCCTGGGGAACCCCGAGAAAGCAGCTATGTGGAGATGAAAGGCCCTCCATCAGTGTCTCCCCCCAGGCAGCCTCTTCATCTCCGGGACAGGCAGCAGCAGCAACTGCAGTCTCAGAGAGACAGCGGCACCTATGAGCAGCCCACTCCCTTGAGCCGTA
Seq A exon
GTGAGCAACCCATTCCCCCAGCAGGGGCTACAGGGCACTGGAACACGGGGAGAAGGAAGGGAGAAGGGGAGGGGAGAGAAGAAAAGAGTGGTGTGATACGGCAAGACCGAGGCCTTTGGATGGTTTGGTCTCAAAACAGGCATGACATTGGGAGAATTGCCCTCCTTCTTTGAGTCTGTTCCTCCTTTGAAGGTTGAGTATTTGAGATGGTGCTTGAATAGGAGGCGGGGAGGGAGAGGGAGAGGAAGAGGGAGAGGGAGAGGGGGAGAGAGAGACAGAGGGGGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGGGGGAGGAGAGAGAGAGAGACAGGGGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACCCAGAAAAGTAGAGACCGAGTTGGGAGACAGTGTCTTCATATCGTTTGAGGTGGACAGGTAGGGTAGTTGAGCAGAGGGCCTGGCTCAGTCATACATCATCCTGGTGCCTGGCCCAGCCAACCACATGCATTGTTGTTCACTTCTCTGTGAGTAGGAAGCAGCTAGAGTAGGAGGAGCCACGGGAGGTTGAGTCACCTCATCCTGTCCTCTCTGTCCTCAG
Seq C2 exon
ATGAAGAGTCTGTGGGCTCCATGCCCCCTCTTCCTCCGGGCCTGCCACCCGGCCACTATGACTCGCCCAAAAACAGCCACATCCCTGGACACTATGACTTGCCTCCAGTACGGCATCCTCCATCACCTCCATCCCGGCGCCAGGACCGCTGAGGAGCCAGCATGGTATGGGAGAGTGCCTGTGAACCCTGCCAGGAGCAGGGCCTGGACCAGCAGGCCATGAATAGACATACTTGGTGAAGTGAACGGAGACTGAGGATGGCTCTGCTTCCACCGAGGGAGACACTAGTTGGCAAAGTGTCTAACCTCCCTTTTCCAGCCCATTGCTCAAGTCCCCCAGGCTGTGGACATGAGCTGGTGGGCAGAATGTTGTTGTTGAAGTCTGATTTTAGATTGATTTTTTAAAATATGTGTTGGGTACCTTTTCTGTGTGTATGCCCAGGCAGGCTGTGTGTGTCTCTGGTTAGACAGGGTGCCAGCTACAGGTTCTGCCTTCTGCACTTTGCAGTTTAACTAGTAGCTTCCAGGCTTAACTAGTTAAAAACTCCAATAGCAGGCCCTAACTACCAGCCCACCCTTCCCTCAGTAATCCTCCATGTCATTGCTCAGAGGACTGCTCCCCACCTCTGGTGTTTGTCTTCCTGGTACGCCTTGGACTATGACAGTCAAACTTTCTATGCCTCAAAGGCCCTGAAGCCTAACTTTCCAGTCTGGCTTGACTCTTTCCCAGAAGGAGGCCATCTACCTCCCTTCTTCCTGCCCCAGGAGTTAGCACATCTAAGTTCAGCCTTCCTTAGTTATCTGTTGAGTCCGGCTCGTCCTTCACATATTCCACAGAGCACCCACCCCACATAGTCTCCTTCATAGCTACTCTCTTCTCCAGGCTCCTGCAGAAGGCAGGAGGGGAGCCAGGCAAAGAATGGGTTTGTCTCATTTTGTTTTGTTTTTGAGACACTGTCTCACGATGTAGTTCTGGCTGGCCTGGAACTCAGAGGTCGGCCTACCTCTGCCTCTTGAGTGCTGGGTTAAAGGCGTGGGTCACAGGTACAGCTCAAGCTGCACTCCATTGTGGTTTCCACGTTACTAGATTAGCCTCCTCTGCCTCCCCCTAGTGGGGAGGCTGATCACCAGCTCTCTGAACGCGGGCCTCCCGTGTTTATCTCGCTCACTCTTGGTTTCCCATGGCACACGGTAGTCACTCAATAAATGTTCCTCTAAAAGCTGAGGGGCTGAATGAAAACACCAGCAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014243:ENSRNOT00000019502:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGATGAAAGGCCCTCCAT
R:
CTATTCATGGCCTGCTGGTCC
Band lengths:
355-974
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]