RnoINT0132775 @ rn6
Intron Retention
Gene
ENSRNOG00000002776 | Sell
Description
selectin L [Source:RGD Symbol;Acc:3655]
Coordinates
chr13:82378309-82379976:+
Coord C1 exon
chr13:82378309-82378494
Coord A exon
chr13:82378495-82379847
Coord C2 exon
chr13:82379848-82379976
Length
1353 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
CTTACTGACTTTTCTTTCAGAGA
3' ss Score
9.61
Exon sequences
Seq C1 exon
TGATTCAGTGCATGCCTCTAGCAGCACCGGATCTGGGCACTATGGAATGCAGTCACCCCCTCGCCAACTTCAGTTTTACTTCTGCTTGTACCTTCACCTGCTCAGAAGAAACTGACTTAATTGGGGAGAGAAAAACTGTCTGCAGATCATCTGGCTCCTGGTCTAGTCCTAGTCCAATATGTCAAA
Seq A exon
GTAAGTACTTTTGCTCAGAAATACTGAAGGCTTAAGGTGGAGCTGATCAACTAGCAGAAGGCAGGAAAGAGATAACAAACATTTAAGTCCCATTTCCCTCAATATATGTGGCCTAAAAAAAGAAACATATATGCAGTTGTGTACTATAAAATCCTTGGCTCTTCTTAGGCTCTCCTTTCATGATAATTATTTTCTTTTTCAACCTCAACTCCTATTACTTTAAAGCTTAAAACGACAGCCATATTTATGTATGACCCATATCTTCATTCTACCACAAGTTTATTTTTCTGTTAGTCCTTTAAAAATGCCTCCCCTAAGCTCACCAATGACTACCCAACTCCCCCAACAAATAGACAGTTCTCTAGTATCCCAAGCTGATGTCTCCCAAATCTGTCTATGTATGAGAAGGACCACATCTTTCTCATCTTTGTGTTTATACCCTGCATAGGAGTACATGAAGAAACATGCTAAAATAATTGTTCATCACATTAGCGTATGAACTAGCTGCGACCAATGTCTGCCCAATGTATACCATCTGCACAGCATATAGAAGTGATAGGCCCTTAAGAAGCTGTCCAAGATCTCTGGGTGTTTGGAGTAGAGTGGGGGCAGGGAGCAGAATGTGGTAGAGAGAACATTGACCAGAATTTGGCCAGGCTGTAGGCCAGGCTCATCAAATACATTTCCTTTCCAACTGACTTAGTTTTCATTTCCTCATCTTTAACAAACCAACAGTCACCGATATGTAAAAGTAGAGTCCTTCACCTGGAGGTATCAGAATATAGTTTTTCCCCCCAAATTAGTATTTTACAATAAAAGGCTGTAAGCCAACCTGGTTTGTATTTCCAAAGGGATATGTAGAAATGTCCTTTTAGTTGATTTGGTTGGAAGTGAAGGGCAGTGGTTCAACTGTATCACTTTAGATCATTGCAGACCCTAGGCATATAAACGGTAAGATTTTTGCAAACCTCCTTCAATGTAAGCAGTAGTAGCAGCTTACTTTGATCAACAGGTTACCCAGATCAGATCGCTGACTTCATTTTCCTTTCAGTTATGTAGTAAGATATTTTCTGTGCTCAGAAGTCAACCTTTAAACCAGACCACCAACAAAAACTTAGCTGAGTTTTGAGACACATCCCCAGGAGTTCCATGAGTCACAGATCTGAGAACTGTGGAAGGCTAGAAGCTGGTCCAGTTGTATACATATCATGGGCCTGCCCATGCTACTCCTCTCATCCGTTGTATGTGTTATTACTGGGTGATATCAGAAGACCAAAATGCCAACTATCATGAGCTGGACTAAGAAAATAATTCTGTGGCTCATGCCATATTCCTTACTGACTTTTCTTTCAG
Seq C2 exon
AGACAAAGAGAAGTTTCTCAAAGATCAAGGAAGGCGACTATAACCCCCTCTTCATTCCAGTAGCTGTCATGGTCACTGCATTCTCAGGGCTGGCATTTATCATTTGGCTGGCAAGGCGGCTAAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002776:ENSRNOT00000003733:6
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=85.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATTCAGTGCATGCCTCTAGC
R:
TTTTTAGCCGCCTTGCCAGC
Band lengths:
312-1665
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]