RnoINT0037103 @ rn6
Intron Retention
Gene
ENSRNOG00000054860 | Clec12a
Description
C-type lectin domain family 12, member A [Source:RGD Symbol;Acc:1592991]
Coordinates
chr4:163120400-163121217:+
Coord C1 exon
chr4:163120400-163120498
Coord A exon
chr4:163120499-163121028
Coord C2 exon
chr4:163121029-163121217
Length
530 bp
Sequences
Splice sites
5' ss Seq
TCTGTATGT
5' ss Score
3.86
3' ss Seq
TGAAAACAAAATCCCTGGAGTTT
3' ss Score
-12.04
Exon sequences
Seq C1 exon
TACCTTCTGCTGGTTCCTATTCACAACATAAAACAGTCTTGATTCTGATTCTTCTATGCCTTCTGCTGTTTATTGGAGTGGTGGCCTTAGGATGCATCT
Seq A exon
GTATGTATCACCCCATTCTTTAAAAAGAAATTTTACATTTAATTAAAATATAGTTGTGTCATCCCATGCCCTTCCCATTAATCCCTCTCATCCTCCTGCCTTCCCCCTCTCAAATTCTGTTATTGTTACAGACGTATATGAATAAATGTGTAAATGCAACCTGAAGAGTCTATTATGTTGTCTATATTTATATATTATATGTCTATATATAGGTATGTATTTATATAGGTATTTTCTGGCTGATTCAGAGGTGTAAAATGCCAGGAGTTATTGAACCAGTGTTTATTCTTTGAATTAAGTCCTTATAATAATCTGTCCCAAAGGTGGCCTTATAATGTGGTCAATAGACATGAACTTCGTCTTTCTAACCACTTCTCTAAAGAAGTCTTTTCATACCACTTTAATATGTTAATACTAAACAAACCTTCAAATTTCTAAAGGTGATAGGATATCTGAAAATTTATAAGTATTTTAAAAGTCATTTACTATTTTCTTATCTTCTTTTGTCTTTGAAAACAAAATCCCTGGAG
Seq C2 exon
TTTATACAACTTTGGAGACAGAAATGATAAAGTCAAATCAATTACAAAGAGTCAAGGAAGAACTTCAGGAAAATGTTTCCCTACAGCTGATGCACAATCTCAACAACTCCAAGAAAATCAAGACTCTTTCTGCTATGCTGCAAAACATAGCCACCCAGTTGTGTCAAGAACTGTCAAAGAAAGAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054860:ENSRNOT00000087113:2
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:
PF0033515=Tetraspannin=PU(24.6=91.2)
A:
NA
C2:
PF0033515=Tetraspannin=FE(50.0=100),PF102344=Cluap1=PU(84.9=96.9)
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:
ACCTTCTGCTGGTTCCTATTCAC
R:
TGGTTCTTTCTTTGACAGTTCTTGAC
Band lengths:
286-816
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]