HsaINT0148361 @ hg19
Intron Retention
Gene
ENSG00000143379 | SETDB1
Description
SET domain, bifurcated 1 [Source:HGNC Symbol;Acc:10761]
Coordinates
chr1:150898815-150900450:+
Coord C1 exon
chr1:150898815-150898993
Coord A exon
chr1:150898994-150900179
Coord C2 exon
chr1:150900180-150900450
Length
1186 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCGG
5' ss Score
6.79
3' ss Seq
TTGTTTTCTGTTCCATGCAGAGG
3' ss Score
9.18
Exon sequences
Seq C1 exon
GGCACTAAAGGTTTGCTTCCGGGCGTTTCTTTTGCTTCCCCTTCCCTCTTTCACGCTTCCTCCCCTCCCCCTCCTCCCTTATCCCTTCGCTTTCGCTCTTTTCCGTCGAGGCCGACCCCTGAGTTGTGAGTCTGGGGTCTGGTTGGTGAAAAAGAGCCCTTGAAGCTGGAAGACGGGAG
Seq A exon
GTGCGGGGAATACTGTTGAGTTATTTGGTGACCAAAGGCTTATCTGGGACGTTTTGTTTGTGGGAGGGGGTCGGGCGAGGGTGGGAAGGAAGTCTTCCCCAGAGGCGAACGGGGGCGGGGCTGAACTGGGTTTGCGAATGGGTAGGACGCACCCCTAGAATGGGTAGCACGGGGGTGGGCTGGTGTGTGGGCAGAGGAAAATGGAGGCGCTGAAAATCAGATTTTCTTTAACCGTTTGATTAAAAAAGCAGTTCACACGAATGTGTGAAGTATTTGGATTGTGGATATTAGGTACCCACGTTTTATTCCCAGGTTGCTTTACTTCTCTGTACTTTGGGGGAAACCTTTTTGCTGCAAGCTTTCGTGTGTTTGAATATCATAGACTTTTTAAAAAGTAAAATTCCACATGGAAGCAAAGTAATATAAGGGGAACAAGTAATGAAAGAGAAAACACTGAGTTAGTGAGTTCCAAATCAACTCCATCCCCAGGTGGGGTTTTGTTTAAATTAGGCATAGCATACAAAGATTTATCACATTAGTTAAGGAACACATATAGACCACAAAAATATCTTATAGATTGGTTCTCTTCAGTATCCCAAAAGATTATTTTTAAAGTTCGGTTTGTTTTGAGACAGGGTCTCACTTTGTCACCCAAGCTGGAATGCATGGCGCGAACATAGCTCACTACAGCAGCTACTCCTGGGCTCAAGCGATCCTCCCACTTCAGCCTCCTGAGTAGCTGGAACTAAAGGCGTGCACCACCACACGTGGCTAATTTTTGTATTTTTTTGTAAAGACGAGTCTTGCCATGTTGCCCAGGCTGGTCTTGAACTCCTGCCCTCAAGCGACCCTCCTGCCTCGGCCTCTAAAAGTGCTGAGATTACAGGTGTAAGCCACTGTGCCAGCCCAAAACATTATTTTCAGTAGCTCTCTACTGCTTAATGAATGTTCTCCATGCCGTCTCAAACTCTTAAATCTTTTTCAGGAGTGTTAGCGTACAGCAGAAGATAAGAACTCTTAAAAATCTCAGCATCAGATTCTGGAGAATAGGGAGGGAGAACATGGAATATTTGAATAGAATAACAGGCAGCAGAGTAGGAATTAGTTTTATTAGGGAACTGAAATTCTCTATTGATTGATTGTAGTTATAAGGACTCCAATTTAATTTGTTTTCTGTTCCATGCAG
Seq C2 exon
AGGACAAAAGCATGTCTTCCCTTCCTGGGTGCATTGGTTTGGATGCAGCAACAGCTACAGTGGAGTCTGAAGAGATTGCAGAGCTGCAACAGGCAGTGGTTGAGGAACTGGGTATCTCTATGGAGGAACTTCGGCATTTCATCGATGAGGAACTGGAGAAGATGGATTGTGTACAGCAACGCAAGAAGCAGCTAGCAGAGTTAGAGACATGGGTAATACAGAAAGAATCTGAGGTGGCTCACGTTGACCAACTCTTTGATGATGCATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143379-SETDB1:NM_001145415:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF058917=Methyltransf_PK=PU(54.5=52.7),PF094815=CRISPR_Cse1=PU(52.4=47.3)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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:
TTTCGCTCTTTTCCGTCGAGG
R:
AAGAGTTGGTCAACGTGAGCC
Band lengths:
345-1531
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)