BtaINT0039196 @ bosTau6
Intron Retention
Gene
ENSBTAG00000046742 | CLEC2A
Description
C-type lectin domain family 2, member A [Source:HGNC Symbol;Acc:HGNC:24191]
Coordinates
chr5:100482315-100484421:+
Coord C1 exon
chr5:100482315-100482418
Coord A exon
chr5:100482419-100484306
Coord C2 exon
chr5:100484307-100484421
Length
1888 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TTTTTATTGTTTCTTTTCAGGTT
3' ss Score
13.25
Exon sequences
Seq C1 exon
AAATTTTTGAAGAAGCATGCAGGAACTTCTATGTACTGGATTGGATTAAGCAGAAAACTAGGAGAGTCTTGGAAATGGACAAATGGCACTACATTCAATGCTGG
Seq A exon
GTGAGTTTCAAATTTACTAGGAAAGGTTCTATTCTGGTGCTGTATAAAAACTTTAAATCAGTTTGAGTTGCATTATTGTAAATAAGTCTCCCTGTTTTCTATGTGTAATTGTCTTTCTCAGTTTCTACCCTGTGACATGTGTCTTCTTAGATTGAAACATACCCTAGACCAACCCACCTTCCTTCTAATTTTGTTATATGGCATGCAGTGAAATTTTCCATTTTTATTTTTGTTCCTTGTTTCATTTCATTTTTATTGTCAAGCTCTTGCTAATAAACCCTCCTATTGCTAACTGAAATTCAACTCTTCTGCAAATTCAAAGTCAAAGCACATGTATTGTACTTTTAAAATTTTTGTAAGATCTCTTTTTTTTTTCTTTAAAGTGTTAGAGACCATATGGAAATAACCATATTTCCAAGTTAAAAGTCTTTAACTCTCCAAGATTTCTTGGAGGAATATCAGCAACCTCAGATATGTGGATGATACCACTTTAATGGCAGAAAGCAAAGAAGAACTAAAGAACCTCTTGTTGAGGGTGAAGGAGGAGAGTGAAAAAGCTGGCTTAAAACTCAGTATTAGAAAAAACTAAGATCATGGCATCTGGTCCCATCACTCCATGGAAAATAGAGGGGGAAAAGGTGGGAGCAGTGACAGATTTCTTCTTCTCGGGCTCTAAAATCACAGTGGATGGTGACTGCAGCCATGAAATTAGAAGAAGATTGCCTCTTGGCAGGAAAACTATGACGAATTTAGACAGTATGTTAAAAAGAGAAGACATCACTTTGCTGACAAAGACCTGTGTAGTAAAGGCTATGATCTTTCCAGTGGACATGTATGGATGTGAGAACTGGACCTTAAAGAAGGCAGAACACAGAAGAATTGATGCTTTCAAATTGTGGTGCTGGAGAAAACTCTTGGGAGTCCCTTGGACAACAAGGACATCAAACCAGTCAGTCTTAAAAGAAATCAACCATGAATACTCATTGGAAAGCCTGATGCTGAAGCTGAAGCTCCAGTAGTTTGGCCACCTGATATGAACAGCCAACTCACTGTAAATAAATTTTATCAATTTGCTTAGTTGATAATCAATCTTTTTCTTTTTATGCAATGAGTATAATCTTTCATCTTTCCATAGTTCTAAATTGGTTTCCATTTTTATATCTAGCAATTAATAATATTAAGGCAGGAAGACATGGATAAAAAGTCAGGAAACAACATTCCCTCAAGAAATAGTTATATAAATAAATAATATTGCTTTTGTTGTTGTTCAGTTGCCAAGTCATGTCTGACTCTTCTTGACTCCATAGACTGCAGCATGCCAGGCTTCTCCGTCCCTCACCATCTCCTGGAGTTTGCCTAAGTTCATGTCCATTGAATTGGTGATGCAAATTGATAAAAATTATTATAATTAGTCTCCTTGGTTTCCATATCAGTATATTTCAAAAGTGCCAAATGAATATAAATCTTGTTTCTTACTTTCAAAACTGAACATTGGCTAAAAATATACCAGGTAATATGCTAGGGAACTGCTTTTAAAAAATTCCATATATCACTTGATTTAGAAACACTTTCTCTCTCTCGAAAGAAATAAATATAGTTAGATAAAGTTAGATAAATGGAGATAGATATAAGCTTTTATTTATGTCTATTATTTCTCTTTGTCTATTTGTATCTCTGTCTTTCTACCTATTGCCCTAAATAAGTTGACAGATTATGCTAATAATAATAGTAATATTAAATACCTACATTGCTTTAAAAAAACAGATATTTGGGGAGTAGAGTATTGTGATAGGTGAGTAAAGCTTAGCGTTTTGTATAAAATGCTTCAAATTGCTCTTTGATTATAGCTGAAAATGGTCCCAAACTGATTTTTATTGTTTCTTTTCAG
Seq C2 exon
GTTTGAAATCAGTGGGAATGGACCCTTTGCTTTTTTGAATTCTGATGGAGTCCACAGTTCCAGGGGATTTGTTGATATCAAGTGGATTTGCAGCAAACCAATATCTAAAACATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046742:ENSBTAT00000064255:2
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(35.8=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(33.7=82.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
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:
TTTTTGAAGAAGCATGCAGGAACT
R:
ATGTTTTAGATATTGGTTTGCTGCA
Band lengths:
214-2102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]