HsaINT0157110 @ hg19
Intron Retention
Gene
ENSG00000204335 | SP5
Description
Sp5 transcription factor [Source:HGNC Symbol;Acc:14529]
Coordinates
chr2:171571857-171574498:+
Coord C1 exon
chr2:171571857-171572073
Coord A exon
chr2:171572074-171572768
Coord C2 exon
chr2:171572769-171574498
Length
695 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGG
5' ss Score
7.2
3' ss Seq
CTCCCTCGCCGCCTATGCAGGAC
3' ss Score
7.95
Exon sequences
Seq C1 exon
CGGGGCGAGCGAGCGGGGCGCGGCGAGGGGCAAGGGCGGGGAGGGCCCCGGCGCTCAGAGCAGGCGCCAGGGAGGCAGGCTGGGCGGCCCTTCGTCCTCGCCTTCGGGTGTCCATGCCTCGGCGGCGGCGTCCCGCTCCGCAGCCAGGGGCCTGCAAGCCGTAGCCATGGCCGCGGTGGCCGTCCTCCGGAACGACTCGCTGCAGGCCTTTCTCCAG
Seq A exon
GTCAGGGCCGAGCCCGGAGGGGGCGGGAGAAAGGTGGAAAGGGCCGTGTCCGGATCTCTCCTGGTACTCCGTGCACCTTGAACCTCAAAGGGAACCCCGCCGATGGGTGCAGCTGGAGCCAGGCCTAGGGGTGCCCACGCCAACTTCACACCTAATCCGGTGTGGCCTTTGCTGGAGGGACGCGTGGATCCGGGATTGTTCGGAGGTGCCCGGCTGGCCGAGAACAGGACCGGAGCTCACCCTGCTGGGCCCTCCTGCTGATTTCAGCCTGGGGCGGGCCAGGGAGGAGCGCGAAGGCAGTGAGGACAAGAGAGCTTAAAAGATGGGAGGGAGAGCGGCCGGCCGGCGGGGTTGTGGGTGTTTCCCGACTCTTACTGACCACGGAGCCGGGAGGGGCCCGTCGGATGCCTCCCCCTCCCACTTCGCGCCTGCTTCCTCTAAGGCTGGATGGCGTCTCAGTGCACCAAGTAGTTTAGCAAGAAGCGCTCGCGGGCCCCACGTTCAGGTAGCGCAGGCACCAAAAGTTTCCCTCGGCCGGTGGGTGCGTGCGTGGGGTGCGGTGGCGGGGGAGGGACGGCCGGGACGGAGGAGGGGCGGCGGTATAATAGCGGGCGTGGGGGCGGCGGGCTGGCCCGGAGTCCGCGCTTGGAGCTAACCTTTTGTCTCTTCTCCGCCCTCCCTCGCCGCCTATGCAG
Seq C2 exon
GACCGCACCCCCAGCGCCTCCCCGGACCTGGGCAAGCACTCGCCCCTGGCATTGCTGGCCGCCACCTGTAGCCGCATCGGCCAGCCGGGCGCGGCGGCGCCCCCGGACTTCCTGCAGGTGCCCTACGACCCCGCGCTGGGCTCACCCTCCAGGCTCTTCCACCCGTGGACCGCCGACATGCCGGCGCACTCGCCAGGCGCACTGCCGCCCCCGCATCCCAGCTTGGGGCTGACGCCGCAGAAGACGCACCTGCAGCCGTCCTTCGGGGCTGCGCACGAGCTTCCCCTTACACCCCCCGCCGACCCCTCGTACCCCTACGAGTTCTCGCCGGTCAAGATGCTGCCCTCGAGCATGGCGGCTCTGCCCGCCAGCTGCGCGCCCGCCTACGTGCCCTACGCGGCGCAGGCCGCGCTGCCGCCAGGCTACTCCAACCTGCTGCCTCCGCCGCCGCCACCGCCCCCGCCGCCCACCTGCCGCCAGTTGTCACCCAACCCGGCCCCCGACGACCTCCCGTGGTGGAGCATCCCGCAGGCGGGCGCCGGGCCGGGGGCCTCCGGGGTTCCGGGAAGCGGCCTCTCCGGCGCCTGTGCCGGGGCCCCCCACGCGCCCCGCTTCCCCGCCTCTGCGGCCGCTGCTGCTGCGGCCGCCGCCGCCCTACAAAGAGGCCTGGTGTTGGGCCCGTCGGACTTTGCGCAGTACCAGAGCCAGATCGCCGCGCTGCTGCAGACCAAGGCCCCCCTGGCGGCCACGGCCAGGAGGTGCCGCCGCTGCCGCTGTCCCAACTGCCAGGCGGCGGGCGGCGCCCCCGAGGCGGAGCCGGGGAAGAAGAAGCAGCACGTGTGCCACGTGCCGGGCTGCGGCAAGGTGTACGGGAAGACGTCGCACCTGAAGGCGCACCTGCGCTGGCACACGGGCGAGCGACCCTTCGTGTGCAACTGGCTCTTCTGCGGGAAGAGCTTCACGCGCTCGGACGAGCTGCAGCGGCACCTGCGGACTCACACGGGCGAGAAGCGCTTTGCCTGTCCCGAGTGCGGCAAGCGCTTCATGCGCAGCGACCACCTCGCGAAGCACGTCAAGACTCACCAGAATAAGAAGCTCAAAGTCGCTGAGGCCGGGGTTAAGCGGGAGGACGCGCGGGACCTGTGAGCCCTCCCGGAGGTGGACCCCCTTCCCAGCACCTCTGCGAGAGATCCGGGGACCTGTGGGCAGCTGGCGGAGGGGAGACTCAGCAGACGGACCCTCTCCGTTGCCTGCCTCCCAAAATGGAGCCAGGCTTCCAACTTCCGCTGCCTTCGGACATAGGGACCCAGTTCCCAGGAGCGGGGAGGTAGGGTTGGGGCTGGGGCATTTGGATTGTAATTGGGAGCTCTGCCGTACGCCAGGGCGGTTCCAAACTCTAAACCGTTCCCACCGTCAGGGAGACCTACAGTTTCGGGGGACCACCCTGGTCTGGCCTTGTATATAGGAAATGCTGCTGAACTGAATAGAAAGGAACTTGGGAGATTTGAAACAGTGCTCGGGTTTTCGCTAGGACCGGTTTGGGCTTTGTACAGGTTATTTAATAGCTTTGTTAAAGATAATTATAATAATTATAACATTAATAAAAATGTTGCTTTTGTCTTCAGCTCCATGCAGAGCTACAGCATGATATGTCTCTGTAAAGTGATCAGCAGTTGCAGCGTGAAAATAAATACTTTAACTCAGGGGTCACTACAGGAAGACCCCGTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204335-SP5:NM_001003845:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.176 A=NA C2=0.375
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=7.3),PF134651=zf-H2C2_2=WD(100=6.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGCAGGCCTTTCTCCAG
R:
CATCTTGACCGGCGAGAACTC
Band lengths:
358-1053
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
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)