BtaINT0039235 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020453 | CLEC5A
Description
C-type lectin domain family 5, member A [Source:HGNC Symbol;Acc:HGNC:2054]
Coordinates
chr4:106059820-106061344:-
Coord C1 exon
chr4:106061238-106061344
Coord A exon
chr4:106059935-106061237
Coord C2 exon
chr4:106059820-106059934
Length
1303 bp
Sequences
Splice sites
5' ss Seq
CAAGTACGT
5' ss Score
8.4
3' ss Seq
TGCTTTCTTTTCTCAACTAGCAT
3' ss Score
7.07
Exon sequences
Seq C1 exon
AAATTTCTCCAGGACATAACTGGTGCTGAGAAGTATTTTATTGGCTTATTATACCAGCCTGTAGAGAAAACGTGGCACTGGATCAACAACGCTAAGTTTAACGGCAA
Seq A exon
GTACGTGGACAGCTCACATTTTTCTGGGATCTTAGCTGCTTCTAGAGACTAGACCCAAGACTCAGTGGGTTTGCCCTGGAACAGCACAAAGGCTGACACTTAGCTGCATGTTCTCTTCCTCTCCTGTATTCCAACCCACTTATCCCCAGAGACACATTTTTAGGGTAAATTTTTTTACTATGGAAAATATCAAATATTTCTGCATAGAGAGAACTGTTCATTCAACAAATTATTTTGTTCAAATCGAGATCCAAGCAAATCCACATACATATCATGTTTGATATATCTCATAATTATCTTTTAACCCAGACATCACATTTTTTTAACTAAGTTCTTACAAGTTCCCCAGATGTGGCTTCTCTGTCTAAAGAAGGGTTATTATAAATAAGTTGTCTATGCCTTAAAGCTACTAAACTTTAACTCCAAAGATCTATGTCCTATGTATTATTCCATGGCCATAGCCATGGTGGGGAACATGACACTCCCAGTGGACCTATGAAAATGGTGAGTCAGATAGAAAGCAAGTCAGTTCCCCAGACTGGAACCAGCTGCTCGCAGAGAGGAGTAAGTAAACATAGCCCCTGCTAAGCACTTTACACATCATTCCTGGTAGCATTCGCAATGATGCTATTAGGAAAAGCTTTTGTTGATTCCCACTTAACAGACAGCTGAATTGAGGACGAGAGACTTAGAAATGTGTTGAATATCACAAAGCCAGGGTGTGGTAGAGCTGCAGTTCGACCCTGCAGCCACTTGGCTCCAAAACTTATGACCTTCCCATGAAACCACACTCTGTCCTGTCAGACTGAAAGACAGTTAAAAGAGGTATGAAAAGACTAACCAAGTTTTTCATAAAGCCAGCTGGTGTCCAGGAAAGGAAGAGATATCTCCTTCCTCCTTCTCCTCTTGGGCCTCCTGTTGAAAACATAGGGCCTCCAGCACTAAAACATTATGTCTGGGAGAAAAGGGGACAAACAGCCCATGAGGTGTTTCTAACCAAACAGAGTGAGTTAATCCAAGACAATGAGTCCGTAAAAGCTCACAGGAGAGCTAACGGGAAAGCATCAGTTTTTGAGCTGGATTTGGGGATGCTGCTGCTGCTAAGTCGCTTCAGTCGTGTCCGACTCTGTGAGACCCCATAGACGGCAGCCCACCATGCTCCTCTGTCCCTAGGACTCTCCAGGCAAGAATACTGGAGTGGGTTGCCATTTCCTTCTCCATGGGCATGCTGAGGGGGTGCCAGAACCAGGAAAAGGCAGGGCTGAAAAGACAGGCCTTAACCATGCTTTCTTTTCTCAACTAG
Seq C2 exon
CATTACCAATCAGGGTCAGAATTTCCACTGCGTGACCATAGGCCTAACAAAGACATATGATGCTGTTTCATGTGACATCACCTACCGATGGATCTGTGAGAAGAAGGCCCAATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020453:ENSBTAT00000027255:5
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(35.7=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(34.7=87.2)
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:
CAGGACATAACTGGTGCTGAGA
R:
GGGCCTTCTTCTCACAGATCC
Band lengths:
208-1511
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]