HsaINT0157104 @ hg19
Intron Retention
Gene
ENSG00000172845 | SP3
Description
Sp3 transcription factor [Source:HGNC Symbol;Acc:11208]
Coordinates
chr2:174829133-174830430:-
Coord C1 exon
chr2:174829893-174830430
Coord A exon
chr2:174829282-174829892
Coord C2 exon
chr2:174829133-174829281
Length
611 bp
Sequences
Splice sites
5' ss Seq
CCGGTACGT
5' ss Score
10.49
3' ss Seq
CCCCCGCGCTGTGCCTGCAGCTC
3' ss Score
10.04
Exon sequences
Seq C1 exon
GGGACGAATTTCCTCCCCAGCTCAGCTCCCCTACAGCTTGGCTAGGCCTGCTCCGAGCGCCTGCAAGGTGGAGGAGGCCTGCGCCTCGGGCCTGGCAGCGGCAGCCGGCGAGGGAGGCGGGCACAGCGGGGTAACCGGCGAGCCGTAGCCGCTCTCGAAAACCTACGCTGCCACGGCCGCTCATTGTCTCTCCCCTTCCACCCGGGGGCAAACAGGAAGCGCGCCGCCTGGCAGACCGACGGACAGGCGCCTGGACCAATGAGCACAGCCGACAAAGAGCACGGCGGCGAATGAGAGCCAAGAAGAGGGGCGGGAGTTCCGGGCGGGCTGTCACCCTCTTCCCCCCTTTTGGGCTGGAGGCTCCACCTTTTGTGTTTCCCGCACAGTCAATCAAAATAGGAAAAAAAAATCCCCGGACCGCTCCGGCCGTGTCCGCCGCCGCTTCCCGCATCCTCTCCCGCCGCCGCCGCCTTCGCTCCTCACCATGTGTAAGGCGGCGGGGAGCCCCGCCTGAGGTGCCCTAAACACACTATGACCG
Seq A exon
GTACGTAAAGCCGAGAGAGCAACCCTTGCTGCTGCCGCCGCCGCCGCTGCCGCCGACCACAGCCAGCCCGGGGCCGCTGCCGCCGGTCTCGGCCCCGTGTGTGCGACCGAGTGTCTGTGAGAGGCAGAAAGCTGCACTCCCCTGCGCCTCCCTCCCCTCCCCGCCAGCCACCGTCCACCCCCGAAGCCCCAGCAACGCCGTCTCCCCGCCAGGCCCCGGGGCGGGCGGCCCGGTCCGCCGGGAGCGCATCCCCCTGTGTGCGGGCGCGGGCGGGCGTGTGTGAGTGACTGACGGTGCGAGAGGAGCGAGCGCGAGTGAGAGCGAGCGGCGCGAAGGGAAAGGGGAGGAGAGGAGAGGGGGCAGGGGCAGCGCGGGGAGGAGGAGGAGGAGGGAAAGAGGAGGAGGAGGAGGGTTACAGGCAGCGGCGGGCGGGGGCAGCAGCAGGAGGGGAGGAGGGAGCCGCCGCCGCCGCCGCCGCCGGGGGGCGGGTGGGGGAGGGGAAGGGGCCTGGGTCCGGGCTTTGGGAGTAATTTCGCTTCGGCCCGCGGGCCCCCTCCCTCTCCGCCACCCGCCTTCCTCCCCACCCCCACCCCCCCGCGCTGTGCCTGCAG
Seq C2 exon
CTCCCGAAAAGCCCGTGAAACAAGAGGAAATGGCTGCCTTGGACGTGGATAGCGGCGGCGGCGGTGGCGGCGGCGGCGGCCACGGCGAGTATCTGCAGCAGCAGCAACAGCACGGAAACGGTGCGGTGGCGGCGGCAGCGGCGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172845-SP3:NM_001172712:1
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=0.963
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGACCAATGAGCACAGC
R:
GCTATCCACGTCCAAGGCAG
Band lengths:
342-953
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)