BtaINT0039155 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004293 | CLEC12B
Description
C-type lectin domain family 12, member B [Source:HGNC Symbol;Acc:HGNC:31966]
Coordinates
chr5:100367669-100369652:+
Coord C1 exon
chr5:100367669-100367775
Coord A exon
chr5:100367776-100369553
Coord C2 exon
chr5:100369554-100369652
Length
1778 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
TTTGTGTTGGCTTTTTTCAGGGT
3' ss Score
9.57
Exon sequences
Seq C1 exon
AGAGCTTTCTTCTACAATGTCTGAAGACGTGACCTATGCGACACTCACGTTTCAGGATTCTGTTGCAGCAGGAAATAATCAGGATAGAAACAACCTAAGAAAAAGAG
Seq A exon
GTAAGGGTTCAGAGATGGCAAGATGTGATCTTGGGGGATGGACACATGTTAGATACCCTGAGGTGCTGGCTTTGACATTGATGCTGTTTGAGAAGTCTGCTTTGGAATTTTCAAAATGGAGGCAAAGTTGGAGAAATTTTTGGTAGAGTGGTGTGCTTTACATTGAGGAGGAAATATGTGGCTTCCAGGACTTTTTAAAATTGGGAAATATTGCTGTGTGTCACCAAGCTCTGTGTTATAGTGAATTATTTCAGCTGAAGATGCCAGAGATTGAGTTTGGGGACTGAGATTTCTTTTTATAAATGTAGTCCTTGATGTTTATACCTCGTGAGAGATGCCAAGGGAAATATCCTTTTACAATCCAGTTTGGAAACTTCTAAACTAGAGAAGTCAGAGGGATTTTTTTTTTTTTTTTGTAGAGTTATCTGAACTTTATCTGAAAAGATAAACTGGAGGATGAGTGAGGTAAAAATAGACAAGAGCTTGCTTCTGTCTTATAAGTACTTACAAATTTTCAAAGGGAAGTTGAAATTCCCAGTATAATTAGTCATGCTGAATCAATGTTGATATGTGTATAGTATTTTATATACACGATATCATGCTTTCATCAAACTAAAATTATGAAAGACATGGAACAATAGTAGTACTTTCTCTGAAGTATTAGTGACAAAACTGAGCTGAAAAACATTAAATGACTTAACCAAATTCATGCAATTGTTACGTGGTAGAGTTGAGACTCAGTTCTTATCCTCTGCTCATTCTCTCGTACCAAATGGAAAGAAATAGCTGTTTCTGTGATCAGGAATCCAATTTAATGAATCAGACTACATCCTTTACATTCAGGAATCTGCTGATGGTTTAGGACAGTTTGTTGTCCTGAGTCATCTACAACATTCTCCTGCTTTTTAGCTTTGTTTTCATTTTAAGCATGTATGTGTATATATGTGTATGTGCGGTTTTGGGGATGAGATACAAAAAGATGATAGGATAGATTTTTCATGTGTCTAATAAAAGTGGTTATGCATTTATGTTTTGTTGTTAAAAAAATCTAATACTTGAGAAAAAGGGAGTGGTGAATATGGTGCATATGTCAGGGCACCTGGAGATTGCCTTCATCTATCTGAGACACTAAGCTAGATGCCCCTGGATCCAGAATTAAGGAATAGGAAGGTGAGGTAAGTATAAAAACTATATATATATATAATATATATACATACATATACATATATGTATACATACATATATATAGGTAAGATATTACATTTTGAAGAGTTATCCTCTGGCTTTGTGGTCTGTTCTGCTGTTGGTAGGTTATCTTGTATATTCACTCATTCTCTCGTTCAGTATCAATTCATTATCTACTAGGTGAAAAATAGTACACATAGTAGATATAGGCAGAATTCACAAAACACCTGCCTTGTGGAGGTTTGCAGTTCTAAGGGTTTCTTCCATTGTCGAGATCATCAGAGGATTTTCCACAATATCTCATTCATGAATTCAGTCATCTTGAAGAAGAAATATGTGTGGTGATGTAAAACAAAAGCCTGAAAATTAGGAGACTCTTAAAGCAATGGAGGATGGTGGAGAAAAAAAAAATGGAGAACTGTGGCAGGGCCCTTGTTTTGTATCATTTTAGATATTTTGGAGATAGAGGATTTGAAGAAGCAAGAGAGAAATTTTAATATCTGGATGGTTGTTAAGTAGGAGAAGTAAACAACTCAATGTGTAACAACCACAAGGCAGTTCTGTTTGCTAATCTTTGTGTTGGCTTTTTTCAG
Seq C2 exon
GGTATCCAGCTCCATCCTCTATATGGCGTCAGGCTGCCCTGGGTCTGCTAACTCTTTGTGTGATGCTGCTGATTGGGCTGGTGACCTTAGGAATTATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004293:ENSBTAT00000030535:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF083915=Ly49=PU(23.0=82.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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:
AGAGCTTTCTTCTACAATGTCTGA
R:
ACATAATTCCTAAGGTCACCAGCC
Band lengths:
206-1984
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]