RnoINT0037108 @ rn6
Intron Retention
Gene
ENSRNOG00000053638 | Clec12b
Description
C-type lectin domain family 12, member B [Source:RGD Symbol;Acc:1560487]
Coordinates
chr4:163146831-163149093:-
Coord C1 exon
chr4:163148995-163149093
Coord A exon
chr4:163147047-163148994
Coord C2 exon
chr4:163146831-163147046
Length
1948 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
AGTCTTCTTATGTCTTCCAGTTT
3' ss Score
6.85
Exon sequences
Seq C1 exon
AATGCCCAGCTCAATCCCCACTTTGGCGAGGAGCTGCCTTGAGCTTGATGACCCTCTGCTTGATGCTGGTGACAGGACTTGTAACCTTGGCAACTATGT
Seq A exon
GTAAGTGTATGTGTATTACACAAATGACAGACATTTAGAAAACACTGGCACAGTGTGCTAATTCAGGAAGGATAAGGTACCAGCATGCAGAATTCTCAAATCACTTCTATTACTCCAGATCATTCTCCAGCACGCCTTTGAAGCAAACTGACCATGGACCTATTTCACTGCTGTGTGAATTCTGCCTCACAGACATTTTTGTCTTTTGATGAACCTGATCACACTGCGAGGAGAATTCTTCTTGCCTTAGTTATTGGTTAGAATGAACAAGCTCTTTTCTGACCAGACATACACATTTGTTAGTCTTATGAAAACATGAGAGCAAGGGGAGAAATGGATTTACAGACAGGTGTGGCAATTTGTTTATATTGAAACTTAGTAGAAGATTAACTCAATCTGCTCACCCATGACCTTCCTAGGGTAAAGAAAACATTGAGTGGCAACAACAACCTGAGTTTTGTGAATGAGGAAAATCACATAGATAAGGAAGAGCAGGGGTGGGAGTTATGTCATACCTGACAGGCAGAATGGAACTATTCTTACAGTGGAAGTCACTCCCTAGCAGACCCTAAGAGAATGTTCTCTTTGTTCTGGGCAGGACATTCTACATTATGGTAATGGAAAGCCATCCAGAGGATATGTATGTTATAAAATGTTACGTATGTGAAATAAAGAGTATTGATTTGATCAGCACTCACTCTCAGGAGACTTGTAATTTAAAAAATCTATTATAATATTAGAAAACACTGTATGCATTAGTGTTTCTTGTTGATGTGACCATACCAAACGAAACAAAACAAAACAACTACAAAAAATAGAAACAAAAAAACCCAACAACAATAAAAGCAGATTTAAAAAAGGAAAGTTTTATTTTGGTCCATGATTTCATTAAGAAGGAATACAGTCCCTCATGATGGGAAGTCACGGAGACAGGTATGTAGAGTAGTTGATCATAATGCATCAGAAGTCAGAGAGCAAAAGGAAGTGAATGCCATGTTCTGCTTGTTTCCTCCTTTATACTCTGCCTAGGTTCACAGCCTAGGGATGGTGATACTCATACTCAGGGTGGCTCTTCATATTTCCAAGATCCCTCTTTGGGAAATGCCCCCACAGGTACATGCAGGGGTTTGTCTGCTAGGTGATCTATACCCTGTTACATCAACATGATTAACGATCACAGACACTAATAATGTCTCCTGTGCTCTATTCATTTATTTCTTATATAAAAGTAGTCATTGATAGTTATGATTTGGACATATAAATACAGACTAATGATTTATCTTCTTCAGAAAAGAAATCTGATATTCTTGTTGAGGTAACAGCTATTCAGTACATGCTGATAGGAAAATAAGTTGCATATCTTCTAAATTTGCATACTCCAAAACAAATTAAAGTGACTTGTCATGAGATGCACTGTAATTTTTTTGTAAAGGACAAGATGCAGTAGTTCCTGGATCACTGGAAAACTTAATAAAAATAAAGATGTTTTTAAATTGATGCATGGATCCAGAATTAGGAGTGGTTAGAATGGTCCAACCATTCTGGGATTGTCTGGAATTATTGACAAAACACTGTCAAGGATGAAAGAAAGAAAATGGGCTGAGGGAGTATAAGCAGGAGAACAACATGAAGCCTACGAAAGAGGGAAAAGGAGGATGGAAAAGAGAAAGGGAGGACAAAAGAAGGAGAAAAAGAAGAAAGAGGAGAGAAAGGAAAGAAAAGAGAAAGGGGGAGGAGAGAGAGAGAAGAAGAAGAAGAAAGAGGAGGAGAAAGGGAAGGAAGAAGAGGAATAGGAGTAAGAGGAGGAAGAGGAGGAGGAGGAGAAAGGGGTAGAGGAGGAGAAAGGGGTGGAGGGAGAATCCCTGGTGGTAGGTATACCACACTCTTGAGTCAGCCTGGCAGCCTTGTGAGAGCAGCAGCTCCCATGCAGTCTTCTTATGTCTTCCAG
Seq C2 exon
TTTTGCAGGTGTCTAATGATATTAACTCTGATTCAGAGAAGTTGAGTGAACTTCAGAAAATCATCCATCCACAGCAGGACAATCTGTCTGAATCACTGAACAACTCCAGAAAGGGTCTTACAGAGGAATCTCTCCAGTCCCAGATCTCTGCCCTCCTGGAGAGGCAGGGGCAGATGGCTACCAAACTCTGCAAGGAATTCCTCATCCATGCTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053638:ENSRNOT00000089712:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.219
Domain overlap (PFAM):
C1:
PF083915=Ly49=PU(23.1=82.4)
A:
NA
C2:
PF083915=Ly49=FE(59.5=100)
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:
CCAGCTCAATCCCCACTTTGG
R:
CAGAAGCATGGATGAGGAATTCC
Band lengths:
310-2258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]