BtaINT0039185 @ bosTau6
Intron Retention
Gene
ENSBTAG00000030424 | CLEC1A
Description
Bos taurus C-type lectin domain family 1, member A (CLEC1A), mRNA. [Source:RefSeq mRNA;Acc:NM_001076081]
Coordinates
chr5:100313319-100314834:+
Coord C1 exon
chr5:100313319-100313495
Coord A exon
chr5:100313496-100314682
Coord C2 exon
chr5:100314683-100314834
Length
1187 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
AAATTTGGTTTCTTTTCAAGAAC
3' ss Score
5.73
Exon sequences
Seq C1 exon
TTTTTCAGTTCTACCAGCTCTCCAACACTCAGCAAGACAGCATTTTGCAAAAGGAGGAAAAACTGGGGAATCTCTCCCGACAGCTGCAATCTCTCCGAACCCAAAACAGGAAACTTGCAGAAACTCTGCATCACGTGGCTGAGAAACTCTGTCGTGAGCTCTATAACAAAACTGGAG
Seq A exon
GTGAGTGCTGATCACTGAGCTTCTCTCTGTTCTCAGCACATCTGTCCATACAGAGCTGATTGTCCCATCAGAGTACCTGGGAACCATGTATTATTCAGCAAGTCATCTGGCAAACTTAATAAAGGGTTTGAACAGCCAGGTCATCCCCAGTTATCGAGATCATGTAGTGCAACTGTGTCTGTTTTACAGTATAGGATGGGATTCATCAAGTTCAGACATTTTTAAATAATAAGTACAATTAACTTTGAATAACCAAAATAACACTACAAGTAAATAAAATACAGGATTACCTTATGAAATATTTCAAATAGAAAAATACAAACAAGAATATAATAACCATTTGCGTGTTGACCTCAGATTTTAAGATGTCAACATTTTGACACTGTATTGCTTTTAAAGTAAAGATATTTTTGTGGAATGATGGGATTTTCATCTCACTGCATACCCACAAGGGACTTAGTTTCAGATACCCAACTCTTAAAGGCCCAGGACCATGTGCCCACATAGGTGTTAGACCATGGCTCTGAGAGCCTAGTTCTTATATTTATAGTCACTCCCCACTCAGTCCATCTCACCCTTGGTCTGTGCACTTACTTCTCTGACTTTGATGTCCATCTTAACTTCTGACTCATGGAGATTTGCTGGTTTAATTCATGCATGGCTTAGTATTTATGTGGTCTTTTTCTAAAATTTCACTTATTTGAGTGAGAAAATAATCCATATCCTATTGCTATATATTTCATTAAAAAATCCTTGTACTACTGTATAAGAGGATATTGAGGAAGAAAATTATAGAAACTTCAATGGTTTCTCAAATCCAATGCATATTGAGTTTCTGAACAGGTAAAAAGGTTCTTTATGAAATTGAATATACTTTTTTTGTGCTGAATTACACAGGGCAAGAAATTTGAAGTTCTAACCACTTACAACTACAGTCCATTGCCCATGAAAGCAGATCATGTCTGTTTTAACTCCCACTGTGTTGTTTTTGTTCCTGCTGTAAACCCAACTATAATTCCTGGCGTACAGTGGGTATTCAGTAAACATTTGTAATTATCATTGCCTGGGCAATTAAATATCTAAGAGAGAGAAAGAATCAATTGTTTCTTGGGTCATCAATATTATGTGATTTTAAGAGAAGGAAGACAGGGTAGAAAATAACTTACTAAATTTGGTTTCTTTTCAAG
Seq C2 exon
AACACAGATGTAGCCCTTGCCCAGAAAAATGGAAATGGCATGGGGACAAATGCTACCAATTCTATAAAGAAAGTAAGAGTTGGCAGGGCTGTGAATATTTCTGCATTGCTGAGAACTCGACTATGCTGAAGATAAACACACAGGAAGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030424:ENSBTAT00000019328:3
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=FE(54.6=100),PF041569=IncA=PD(67.1=95.0),PF039189=CcmH=FE(71.1=100)
A:
NA
C2:
PF083915=Ly49=PD(18.5=39.2),PF039189=CcmH=PD(2.4=3.9),PF0005916=Lectin_C=PU(25.5=52.9)
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:
TTTTTCAGTTCTACCAGCTCTCCA
R:
CACTTCCTGTGTGTTTATCTTCAGC
Band lengths:
326-1513
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]