RnoINT0037109 @ rn6
Intron Retention
Gene
ENSRNOG00000053638 | Clec12b
Description
C-type lectin domain family 12, member B [Source:RGD Symbol;Acc:1560487]
Coordinates
chr4:163146215-163147046:-
Coord C1 exon
chr4:163146831-163147046
Coord A exon
chr4:163146370-163146830
Coord C2 exon
chr4:163146215-163146369
Length
461 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATT
5' ss Score
5.99
3' ss Seq
AGTATGATGTCCTTTTTCAGACC
3' ss Score
7.43
Exon sequences
Seq C1 exon
TTTTGCAGGTGTCTAATGATATTAACTCTGATTCAGAGAAGTTGAGTGAACTTCAGAAAATCATCCATCCACAGCAGGACAATCTGTCTGAATCACTGAACAACTCCAGAAAGGGTCTTACAGAGGAATCTCTCCAGTCCCAGATCTCTGCCCTCCTGGAGAGGCAGGGGCAGATGGCTACCAAACTCTGCAAGGAATTCCTCATCCATGCTTCTG
Seq A exon
GTAATTTGTCTTAGATCTGCAAAAAGGCCAGATCAGACCTGACACCCTGACTAAAGTCCCCACATCAAGCATAGCACCTAAGAGTTATGTCCTCCAACAATCCCTTGAGCATGGCACCTTAAATGTACAATGAACAAGGAATTACAGATATTTCTTTAATATTTTGGGAAACTTCATAGTCACTTCCAAATGCGATTAGCCTGAAAACCTTAACCTTTCACCTTATCAGTTACTTCTTGGTGATTTGGTTATCATAATATTCAAAAGCTTCACCTGCAAAGAGAATCCCCTGACATTGTGAAACCCCCAACTGGGGTTACTCTGCTTCCAGAGGGTCCTGTCATGGTATGTTTCGGGGTACTCATGCTCAGATCTGTCATCCATGTGCATGACTTAGTTTCCAAAGGTTTCTACGATCACCTCACAGAGTTTGTACTTTTGAGTATGATGTCCTTTTTCAG
Seq C2 exon
ACCATAAGTGCAATCCTTGTCCCAAGACATGGCAATGGCATGGAAACAGCTGCTACTATTTCTCAGCCAATGAAGAGAAATCCTGGCGTGATAGCAGAAAGGACTGTACGGACAAGAATGCCACGCTGGTGAAGATTGACAGTATTGAAGAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053638:ENSRNOT00000089712:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.219 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF083915=Ly49=FE(59.5=100)
A:
NA
C2:
PF083915=Ly49=PD(16.5=38.5),PF0005916=Lectin_C=PU(25.7=51.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
TGCAGGTGTCTAATGATATTAACTCT
R:
AATCTTCACCAGCGTGGCATT
Band lengths:
350-811
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]