BtaINT0039158 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004293 | CLEC12B
Description
C-type lectin domain family 12, member B [Source:HGNC Symbol;Acc:HGNC:31966]
Coordinates
chr5:100372019-100372691:+
Coord C1 exon
chr5:100372019-100372173
Coord A exon
chr5:100372174-100372575
Coord C2 exon
chr5:100372576-100372691
Length
402 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
TTTCCTGTTTTCTCTTTCAGGAT
3' ss Score
15
Exon sequences
Seq C1 exon
ACCACAAATGCAATCCTTGTCCTAAGACCTGGAAATGGTACCAAACCAGCTGCTATTATTTTGCAGTAAATGAGGAAAAAACCTGGCCTAACAGTAGAAAAAACTGCATGGACAAGAACTCCACGCTGGTGAAGATAGACAGCCTAGAAGAAAAG
Seq A exon
GTCAGGTTGAATCTCCTTCCCTGGTTAGAGAAATTATTCATGTATTTGAAAGTAAATAGAATTTCTGAATCACATGGTAGGAATTCAGTGCATTTTGAGTAAGAATTGGGCTTCCCTGGTAGCTCAGCTGGTAAGGAATATGCCTGCAATGCAGGAGACCCCCAGTTGATTCCTGGGTTGGGAAGATTCCCTGGAGAATGGAATGGCAACCCACTCCAGTATCTGGCCTGGAGAATTCCAGGTCACAAAAGAGTCGGACACAACTGAGGGTCTCAAAGAGGGACATGACTGAGCAACTTTCACTTTCACTTTTCACATGAATTCGATGAATGGTCCCATCTCTCTTACTTCAGCAAACAGGAATGTGCCCCTCACAGAACTTTTTCCTGTTTTCTCTTTCAG
Seq C2 exon
GATTTTCTGAGGTCACAACCATTACCCAAGTTTCCTTTCTTCTGGTTGGGACTATCTTGGGACCCATCTGGCAGAAGTTGGCTTTGGGAGGATAGCTCTAGACCCTCTCCATCCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004293:ENSBTAT00000030535:4
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:
PF083915=Ly49=PD(16.4=38.5),PF0005916=Lectin_C=PU(25.7=51.9)
A:
NA
C2:
PF0005916=Lectin_C=FE(36.2=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:
ACCACAAATGCAATCCTTGTCCT
R:
AGGATGGAGAGGGTCTAGAGC
Band lengths:
270-672
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]