BtaINT0039159 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004293 | CLEC12B
Description
C-type lectin domain family 12, member B [Source:HGNC Symbol;Acc:HGNC:31966]
Coordinates
chr5:100372576-100374009:+
Coord C1 exon
chr5:100372576-100372691
Coord A exon
chr5:100372692-100373703
Coord C2 exon
chr5:100373704-100374009
Length
1012 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGT
5' ss Score
8
3' ss Seq
TAAAATTGATTCTTTTTCAGATT
3' ss Score
8.72
Exon sequences
Seq C1 exon
GATTTTCTGAGGTCACAACCATTACCCAAGTTTCCTTTCTTCTGGTTGGGACTATCTTGGGACCCATCTGGCAGAAGTTGGCTTTGGGAGGATAGCTCTAGACCCTCTCCATCCTT
Seq A exon
GTAAGTCTCTAATTATTGGGGAAAGAAACAAGCAAAAGATATTAAAAATGGAATGTAAAGAAAATAAATGTGAATTATAAGAATTATACATCTAGATACAAAAAAGTACAACCTCCAACAAGAAGAGAGCTTCATTAATAGAGATGGAAATGAGGAGGACTTCATTTCATGTGTGAGATAAATTCATGGCAGGACACTGAATTCCATCTATTAGTTTAAGCTTATTTCTCTATTTAACAAACACAAGTAATACTTATGATGTTCAAACTATTATTATCCCTATGATAAAAGCACTGTTATATTCCCATTTTATAGATTAAAAAATTATCATAGAGTAAACAAAAGTGTACACATCGCAAGTAAGATTTAGTGAGCTAAGCCTTGAAGTGAGAAAAGAATATTATAGTGTAGTACAGATCATTTGAATAAAAGCAGTCCAGGGCACATGGAAGATTTAGACATGATCATCATTTTCTGATGTCATTACTTAAGAGTTATCATCAATTCTTTAGCAGAAGAACTAGGAACCAATATCAGAACTACATCTATATTGTCATTCATTTCCTCTAACCCCTGTTTTATTCTCTTTTCACTCCCCACGTATGTATAAATATATACAAAATGATATTTGTACATAGTAAAATGTAACGTATTTTTATACAGAATGTGATTGTATTTTTCTGTTTTTCTTCAGAAAGTTCCAGAGTAAAGGAATTCTAGTTCTTTTAATGTATAATCTGCATGGGGTAGTTTCTATCATGTTATGGAGAAAATAGAAATTCTCAACTCCTGATTTAAGCTTACTTCTTAAATAATTCTATCTGAGATCATGAGTAATTGGAAATTTTTAAAAACTCAAATATGCAAGCTTTAGGGATTTTTATGGTTGCTGGCCACAGAAGTCCTTCAACATTCACACGCATGAGTTTCATTGTCAGGGAAGCTGAAAACAATGAATTGTGGTCGATTCAAAGGTGTATTTGTAATTAATTTAAAATTGATTCTTTTTCAG
Seq C2 exon
ATTTAGTGCTTATGAATATGCTCAGATCAATGAATCCAAGGGATGTGCCTATTTTCAAAATGGGAATATTTATATATCCCGCTGCAGTGCTGAAATTTCTTGGATTTGCGAGAAGACAGCTGCATTAGTGAAGATTGAAGACTTGGATTAATATGCTTCCTCCAAGATGTAAGGGACTTATGATTAAGGTGATATGAGGAAGGAAAGAGCTTTACTATTAAAGGGAAAAAAAAAAACAGATTAAATAGTGACTGTCTGTATATTTAAACCATCAGGCAACAGGCAAATAAACTTGCTACACAGAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004293:ENSBTAT00000030535:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=FE(36.2=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(36.2=74.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
GACCCATCTGGCAGAAGTTGG
R:
TTGCCTGTTGCCTGATGGTTT
Band lengths:
342-1354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]