BtaINT0039151 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012815 | CLEC12A
Description
C-type lectin domain family 12, member A [Source:HGNC Symbol;Acc:HGNC:31713]
Coordinates
chr5:100393744-100394706:+
Coord C1 exon
chr5:100393744-100393842
Coord A exon
chr5:100393843-100394538
Coord C2 exon
chr5:100394539-100394706
Length
696 bp
Sequences
Splice sites
5' ss Seq
TATGTATGT
5' ss Score
3.25
3' ss Seq
TTTAAAAACTTTGAAGACAGGCA
3' ss Score
-2.54
Exon sequences
Seq C1 exon
ACCCACCTGTTCCTTCCCACGTATGGCGTCAAGGAGCCTTGGCTCTGACTCTTCTGTGCCTTCTGCTGCTGATTGGCCTGGGCGTCTTTGGAGCCATAT
Seq A exon
GTATGTATTCCCTATGTTTTTACTGCCAGGGAAAACACTTAGAAGTGAGTTTTGCTCTTTAAATCGAAGCCTTGGAATAGGTGATATGTCCACAAAGGGACTTAAAACTAGGCAGTTATAACACAGTACTTACTCTCTTTCTAAAATTTTACAATTAAAAATTTTTTAAATGTAAAATTTTATTTTTAATTGGAGGATACTTGTTTTACAATATTATGTTGGTTTCTGCTATACAACAGGGTGAATCAGCTATATGTATGCATGTATCCCCTCCGTCTTGAACCTCCCTTCCAATGCCTCATCCCTCCCCTCTAGGTTAGCACAGAGCATCGGTTGAGTTCCCCATGTTATATATAGCACTTATATGTAAATACCTGTTTATTTTACACATGGGAATGTATATGTTTCAATGCTACTCTCTCAATTCATCCCACCCTTTCCTTCCCCAGCTGTGCCCACAAGTCTGTTCTCTATATCTGCGCCTCTATTCTTGTCCTCTAAATAGGATCATATGTATTCAGTCTCTTTCCCTTACTTCTGTGAAATAACTGCTTCCCTAAACATTTAATATTCTTAATTCAGCAGAAAGGAGATGATGGTTGTACTGAGCGACTGCAGTTTTTTTTTTTTTTTTTATCATTTCTCTTTTTTTTAAATGTGACATTCACATATCGGATTTAAAAACTTTGAAGACAG
Seq C2 exon
GCATGGAAAAATTGAATAAGCTACAAAATTTCAAAGAAGAACTTCAAAGAAATATGTCTCTACAACTCATGCAGAACACAAATAGTTCCCAGAAAATCAGGAACCTTTCTATCAAACTTGAAGAAATAGCCACCAAATTATGTCGTGAGTTATATACAAAAAACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012815:ENSBTAT00000017022:2
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:
PF137861=DUF4179=PU(39.5=88.2),PF083915=Ly49=PU(22.2=82.4)
A:
NA
C2:
PF137861=DUF4179=PD(59.2=78.9),PF083915=Ly49=FE(44.4=100),PF074328=Hc1=PU(84.6=96.5)
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:
ACCCACCTGTTCCTTCCCAC
R:
ATATAACTCACGACATAATTTGGTGG
Band lengths:
254-950
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]