HsaINT0036280 @ hg19
Intron Retention
Gene
ENSG00000172243 | CLEC7A
Description
C-type lectin domain family 7, member A [Source:HGNC Symbol;Acc:14558]
Coordinates
chr12:10275844-10278047:-
Coord C1 exon
chr12:10277896-10278047
Coord A exon
chr12:10275963-10277895
Coord C2 exon
chr12:10275844-10275962
Length
1933 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TTGTATATGTTTCATTACAGGGA
3' ss Score
8.8
Exon sequences
Seq C1 exon
GGGTTCTTTCCAGCCCTTGTCCTCCTAATTGGATTATATATGAGAAGAGCTGTTATCTATTCAGCATGTCACTAAATTCCTGGGATGGAAGTAAAAGACAATGCTGGCAACTGGGCTCTAATCTCCTAAAGATAGACAGCTCAAATGAATTG
Seq A exon
GTAAGTGTAGACTTCTGTTATGATTATCTGTGGTGTGTATCCTGAAGGAAGATAGAGGGAGATTCCAGGTAATGACAATTTTTCCTAAAATGAAGTCTTTTTTTTTTTTTTTTTTTGAGGCAGAGTCTCACTCTGTTGCCCAAGCTAGAGTGCAGTGAAGCCGCGACATCCCAGGCTCAAGTGATCCTCCCACCTCAGCTTCCTGAGTAGGTAGGACTACAGGGTGCACCACCACACTCGTCTAATGTTTTTTTGTATTTTTCATAGAGACGAGGTTTCTCCATATCATCTGGGCTGGTCTCAAAATCCTGGGCACAAGCGATCTGCCTACCTCGATCTCCCAGTGTTGGGATTACAGGTGTAAGCCACCATACTTGGCCAAAATTCATTTTTAATATCTCTATAATTATAATCATAGCATGCCTTAAGCACATAAAGTGCATAGTATATGCTTTTATTTTTAACTAATTTAAAAAACTGTGTTTCGCCTTAAAACAAATCCTTTCAAACATACTCCATGTATGCATGACTACAATAATCAGGACACTACCCATTTTTGTGAGTTTGTATTTCAATTTTTAAATATGGTGGAAGTAAAGTAGAAAATTCTTCTCCTTGTCATCATAATTATCAAGAAAAATGGCAACAATGATAATATATGTTTAGAAATTATTTACTCTTTGCAAGATACTGGGAAAGGCAAAGAGGGTTAAAACATAACCCTGCTATCACAGGACACATATAATCTTTTAAGTAAAAAAAAAGCAACTCAGCAGCTATTAAAAGTTAAATATCTGGCATTAGCAATAAATTCTATAGGAGTTTAAAGAGATCCCCGTGTTCCTAAGAAGTTTTCAGAAAAAGTGGCACTTATAACACATCATGAATGAAGGGTAGAGCTTCAATGAGGTAAGATAAGGGGTTAATAGGAAAAATTCTATGTTATAAATCTAAACCAGTCTATAACTTCTACACCTACTTTCACTATTCTTATTTTGTTTTTGTTTCTGTAATGTCTTACCCAGTAGTAATAATTTATATTAAAGTTAATGGAACTAGATATATGGCAAAGAAAGAGTACTGGATTACAAGTCTATCTGACTTTTAGGCCAGCCTATAATTGAAAATAAATTGTTATAGATTTGTAAACAATTCAGATATCTTCACTGAACCTCAGATTACATATTCATAAAATATACAGTTGGACTAAATTATTTTTAAGTTGTTACCTAACTCTGAGAAGTACTTCTTAACGAAAGTAGCGTCAATTTATTTCTTCAATTGGAGGAGAAGACAATGGCTAATCATCCATGAAAACTGCCTAGGGGGACTGTCATCTGGGATTTTGTCAGATAGGTTGAATGGAGGCAGTACAGTCCTCACATTACAAATCTATTCTTTTGGAAAATTAAATGATAATTACTTTAAATAAATAAGATAGGCCTTTTGAGACATTCAATGACATTCAAAAATTGGCACTTCTCTCTAGGTTGATGTCAGGTTAGGCATGCATTCTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCCGGACTGCGGACTGCAGTGGCGCAATCTCGGCTCACTGCAAGCTCCGCTTCCCGGGTTCATGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACCACAGGCGCCCGCCACCGCGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCTTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCTACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCTTGCATTCTTTACCAAAGTGATTCAATCAGTTGTCTTTTTCTCAGCGTCCATGATAATAGTTTCTTTCTCTCTCTCTCTCTCTCTTTATTATATATTTGTATATGTTTCATTACAG
Seq C2 exon
GGATTTATAGTAAAACAAGTGTCTTCCCAACCTGATAATTCATTTTGGATAGGCCTTTCTCGGCCCCAGACTGAGGTACCATGGCTCTGGGAGGATGGATCAACATTCTCTTCTAACTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172243-CLEC7A:NM_022570:3
Average complexity
IR-C
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:
PF0033515=Tetraspannin=PD(35.1=92.2),PF0769011=MFS_1=PD(25.4=56.9),PF083915=Ly49=PD(1.3=2.0),PF059667=Chordopox_A33R=FE(41.0=100)
A:
NA
C2:
PF0033515=Tetraspannin=PD(2.1=7.5),PF0005916=Lectin_C=FE(36.4=100)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
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:
GGGTTCTTTCCAGCCCTTGTC
R:
AGTTAGAAGAGAATGTTGATCCATCC
Band lengths:
270-2203
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)