HsaINT0157105 @ hg19
Intron Retention
Gene
ENSG00000105866 | SP4
Description
Sp4 transcription factor [Source:HGNC Symbol;Acc:11209]
Coordinates
chr7:21467689-21468410:+
Coord C1 exon
chr7:21467689-21467876
Coord A exon
chr7:21467877-21468294
Coord C2 exon
chr7:21468295-21468410
Length
418 bp
Sequences
Splice sites
5' ss Seq
GCGGTACGT
5' ss Score
10.27
3' ss Seq
GGTGGGGGGGTTTGTTGCAGATC
3' ss Score
4.5
Exon sequences
Seq C1 exon
AGCTGCTACGCCACAGCCCAGCGGCGGCCATTCGCGGAAAAAGAGGCAGAGCCTGTGCCAGCTACAGCCTCCTCCGAGCCACCGCGGGCGGGCGGGACCGGCCTCTCCTCCCGCCTCGCCCCCACCCCCACCCACCTCTATCCCAGTGTCTCCGTCTGAGGGTTTGTCCTGTTAATGCGGGATGAGCG
Seq A exon
GTACGTATTCTCCACCCCCCTCAGTCTCCTTCGCCGCCTCCCTCTCTCCCTCCCTCCCCAGACCCTGCTCGGTTCTCCCCCCTCCCCCGGGGCCGCTGAGATGCTTTAAGGGGAGGAGGAGAGGGCGGGAGGGAATCGGGGAGGGAAGGAGGGTTGTGTTTTGTCTTAATGTCTGAGAGAGAACAACCTCCTTCTGGGTGTTGCTCTGGAGCCGATGGGTCGGGTTTCAAACCACGTTTTGTGATATCCCCCTCCTCCCTTCCCTCCTTCTCCCCCACCCCCTGCCGGTGTGCGTGGATCGCGGGTTTATGGAGATTAATGTTCGGGGGGAGGGGGGAGAAGAGGAGAGGAAGAAGACGAATAATAATAATCCTAATAACCTGTTGTCGTGTGTGTGTGGTGGGGGGGTTTGTTGCAG
Seq C2 exon
ATCAGAAGAAGGAGGAGGAGGAGGAGGCGGCAGCGGCAGCGGCGATGGCTACAGAAGGAGGGAAAACCTCTGAGCCAGAGAATAACAATAAAAAACCCAAAACCTCAGGCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000105866-SP4:NM_003112:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF140161=DUF4232=PU(3.7=66.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTACGCCACAGCCCA
R:
CTGGGAGCCTGAGGTTTTGG
Band lengths:
302-720
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)