RnoINT0037158 @ rn6
Intron Retention
Gene
ENSRNOG00000052128 | Clec2e
Description
C-type lectin domain family 2, member E [Source:RGD Symbol;Acc:1587527]
Coordinates
chr4:162855621-162856663:-
Coord C1 exon
chr4:162856380-162856663
Coord A exon
chr4:162855741-162856379
Coord C2 exon
chr4:162855621-162855740
Length
639 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
TCACAGATTTATATTTTCAGGTA
3' ss Score
7.32
Exon sequences
Seq C1 exon
TTCCCAACAAACAGAAACTATGTGCTGACAGGTGATGTGTTCAGGACTGTGAAGGAGTGATTAATGAATCACCCTTCTGGACTGAGATTATAAAATGCTTATCAGGAAGTACATATAGGTATATAAGTCTCCACAGTTTTGCTTCTAACCTCTTCCTGAATTCAGTTGAGTCTCAGCTCTTCCTCTCAGCTCAGACATGGGTGCTGCAAAGATTGAAGAGGCTTGCCTAGGCATGCTGAAGATAGACCTCACTGCTGCAGACTGCCCGCAGGAGGGAGAAATGG
Seq A exon
GTATGTATTTTAATGCAATTTGGAAGGGATAAAGAGGAGTTTCTGTGGAGATCCTCAGAGGAGCTGAGCATCCTGCCTGTTAACATGTCATGGTGTGTCATGGTGACAGAAATCAATGTGGCAGAATTGTGGTTACTAGTACAAGAAAGTCAGAAGTTCAAGGCCAATGTTGGCTAAATGTTGAGTAAGAGAGTGAGAGAATTATATTAGACCCTGTTCTGTCTATCTATGAATGTAGCTAACTAGATCATTCACGCACTCGCTCTACAGAACTGCCTAATGATATGTAATGATTTTTTTCTCATTATTGTTACAGTTTCTTCAGTCTTAACCAGATCTATTCTAATGGAACTAAGTCTACAGATAACTTTTTCCTTCTTTATCCCCATCTTCATTCTTCCTATTCCTTGCTCTTTGTGGGCCCTTGGATCAATAACTGGGAGATTCTATGACAAAAAGTCTGTTTCCCTTTCCTCTAGTGTTCTGTGAGCCAAGGACATCATTTGTGGATGGAAAACTTCTGTGGAGGGGTTACATTAGGGAAGTAAAAGCCAAATCTACACATGATTTTTTGGGGGGATATTTATATTATTCTATAAAAGATTTTTAAGATTGACATTCACAGATTTATATTTTCAG
Seq C2 exon
GTAAAAAACTTCAAGCAAAATGTCTCAGCGTCGTTTCCCCTGCTAAGCTTCTCTGCTGCTATCGAGTAGTGATCGTGGTCCTCATTGTAGCTGTAGTTGCTCTTTCTGTTGCTTTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052128:ENSRNOT00000077791:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
TGTGCTGACAGGTGATGTGTT
R:
ACAGCTACAATGAGGACCACG
Band lengths:
358-997
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]