HsaINT0036119 @ hg38
Intron Retention
Gene
ENSG00000256660 | CLEC12B
Description
C-type lectin domain family 12 member B [Source:HGNC Symbol;Acc:HGNC:31966]
Coordinates
chr12:10015252-10015727:+
Coord C1 exon
chr12:10015252-10015406
Coord A exon
chr12:10015407-10015611
Coord C2 exon
chr12:10015612-10015727
Length
205 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TTCTCTGTTTTCTCTCTTAGGAT
3' ss Score
12.91
Exon sequences
Seq C1 exon
ACCACAGATGTAATCCATGTCCTAAGATGTGGCAATGGTACCAAAATAGTTGCTACTATTTTACAACAAATGAGGAGAAAACCTGGGCTAACAGTAGAAAGGACTGCATAGACAAGAACTCCACCCTAGTGAAGATAGACAGTTTGGAAGAAAAG
Seq A exon
GTAGGATTGAGTCTCATTCTCTAGTTATAGACATTATCCATACAATGAGAGAGAAATAAATAAAACATCTGATTCACATGATGGAAATTCAGTGCATCTTGAATTAGAATTAATACATGAATTTAATGAATGTCCTCATCTATCTTAACTCTGCAAACTGGAATGTGGCGCTCACGTAAAACTTTTTCTCTGTTTTCTCTCTTAG
Seq C2 exon
GATTTTCTTATGTCACAGCCATTACTCATGTTTTCGTTCTTTTGGCTGGGATTATCATGGGACTCCTCTGGCAGAAGTTGGTTCTGGGAAGATGGCTCTGTTCCCTCTCCATCCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000256660:ENST00000338896:4
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=PD(16.4=38.5),PF0005916=Lectin_C=PU(25.7=51.9)
A:
NA
C2:
PF0005916=Lectin_C=PD(59.7=95.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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:
ACCACAGATGTAATCCATGTCCT
R:
AGGATGGAGAGGGAACAGAGC
Band lengths:
270-475
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development