RnoINT0132784 @ rn6
Intron Retention
Gene
ENSRNOG00000002794 | Selp
Description
selectin P [Source:RGD Symbol;Acc:3656]
Coordinates
chr13:82441118-82442795:+
Coord C1 exon
chr13:82441118-82441504
Coord A exon
chr13:82441505-82442687
Coord C2 exon
chr13:82442688-82442795
Length
1183 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CCTTTCTTGTATCCACGCAGCCT
3' ss Score
8.11
Exon sequences
Seq C1 exon
AGCTTGTAAATCAGAAGGAAGTGGCCGCGTGGACCTATAACTACAGCACGAAAGCATACTCATGGAATAACTCACGGGCATTCTGCAAGAGGCACTTCACAGACTTAGTGGCCATCCAGAACAAGAATGAAATCGCTCACCTCAATGACGTCATCCCATACGTCAACTCTTACTACTGGATTGGTATCCGAAAGATCAACAATAAGTGGACCTGGGTGGGAACCAATAAGACTCTCACGGCGGAGGCTGAGAACTGGGCAGACAACGAGCCCAACAACAAGAGGAACAACCAGGACTGTGTGGAGATCTACATCAAGAGTAATTCGGCCCCTGGCAAGTGGAATGATGAGCCCTGCTTTAAACGAAAGCGGGCCCTGTGCTACACAG
Seq A exon
GTGAGACCTCCCCTGAGCCGACGCCGTCTCTTAAAAACATGCCTTTCCTGGATGAGGAGTGTAACCACTGAGTCAGGAACATGGGAGCACAAAGTCGGGCATGAGAAAGTGCAGAGCTACTCAGTATTACTGAGCACCTTGAAGAACATAAGATCAGGATTAGCGAAAAACCACCTACTTGAAACTAGAAGGGTCTTTAGTATCGCCCAGCCCACCCTCCTTATTACTGATGACGCTGTGCTCAGGAAAGGTTTATCAAGACCCTGATTTCAAAAAAAAGGTTACAAGATATAAAATACATCAAGAATTACTAACATTGTGGTGCTTTTTCTGTACCAGGCAACAAGGTGCAATTTTCCAAAACGCTGATATGATCCATGCTAAACAACACATAATTCCAGACAGTGACTGACACTTTGTACCCTAAGATGTATAGAAGCTCCCCGTGGGAGAGACATGATGACAGGTAGACAGGAATATTGCAATGAGATATTAAGTTTGCTTGCTTTGATCATGAGAAGATTTATTCTTCCAGTCTCTGTTGATCTCCTCCCTGGAGACATGTTGTTAAATGTCCTGGAAACAGTGTGTGGCCACCCCACCAGTGACACCACCAAATCTTGGAGTAAAAATTGGCCTCAGGGCATAGATAGTTTTGGTTAGAAAACTACAACCCATTTTGCTTGATTGACATGAGTAAGTTCCTCTGTCCACACATCTATTTGTGACTGCCCTTGTGGCTCTGGGTCTACACACAGTTGTGCCCTTGTTTGGGAATTCTAAATATGTCATCCATCAGGAGCCTTGTAGTACTTCTGTGATGATCTTAGGACTAGAAACCAGTCTTCTAAATTTTACACCTAGAACTTTTCTACACCAGGATGCATTAGCATAAGAAGATACAGATTGAGATAAAAATCATCCCCCAAGAGACACCATTGTAATGAATACCTACTAGTACTGAATGTCAATTGCATCTAGGGTCACTTTATGTAATTCCATTTGTGTCACTTTGTTTATTTAGCATTAGTCACATTGTCAGCCGGGCCCTTCCATTGCTGTTTGCCTTGCGATGCCCATCATGGGACATGGGTGGACCCTCTACATGGCTCCTGAGAGGTTGGCATCTGTGTCTCGTTTCCTGTGAATGTCTGTGGTTCTGACCTTTCTTGTATCCACGCAG
Seq C2 exon
CCTCCTGCCAGGACATGTCTTGCAACAGCCAAGGGGAGTGCATCGAGACCATTGGGAGCTACACCTGCTCCTGCTACCCGGGCTTCTATGGGCCAGAGTGTGAATACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002794:ENSRNOT00000003759:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=WD(100=86.2)
A:
NA
C2:
PF0000822=EGF=WD(100=81.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTCACCTCAATGACGTCAT
R:
CACACTCTGGCCCATAGAAGC
Band lengths:
356-1539
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]