HsaINT0160071 @ hg19
Intron Retention
Gene
ENSG00000136011 | STAB2
Description
stabilin 2 [Source:HGNC Symbol;Acc:18629]
Coordinates
chr12:104131412-104133246:+
Coord C1 exon
chr12:104131412-104131558
Coord A exon
chr12:104131559-104133189
Coord C2 exon
chr12:104133190-104133246
Length
1631 bp
Sequences
Splice sites
5' ss Seq
TCGGTCAGT
5' ss Score
7.03
3' ss Seq
TTTCTTTTCTTGCATACTAGGGG
3' ss Score
8.67
Exon sequences
Seq C1 exon
GGTGACCTCTTTCTGAATGGCCAAACCTGCAGAATTGTGCAGCGGGAGCTCTTGTTTGACCTGGGTGTGGCCTACGGCATTGACTGTCTGCTGATTGATCCCACCCTGGGGGGCCGCTGTGACACCTTTACTACTTTCGATGCCTCG
Seq A exon
GTCAGTCCTAAAAACAACAGTGTAGTAAGAGAACCTTAAGCCAAAGAATGGCCCTCATGATCCAGTGTGGACCCTGTTGTGAAACCATTAAGGGCCTGTCCTCAGCAAGACTAGGACCCAGAAGACCTGAGGGCCAAATGATGTAGTTCTTTAGACTCAGAAGCAACAGGCATCTACTTAGCCCCACACAGCCTGGAATATTCTTGTTTATCCACCCATCTACTCACCCACTCATTCACTCCCTTATCATTGAGAAAACAGTTTTTGGATACCAACCATATGCCAACTGCCATTCGTTTTCAAACACATCCCTCTATTCAGTCACTCACTCATGCATTCAACAAATATTTGTTGAATGTCTGACAGATTACACCATATGAAATTGCCATATTTGACAGTCTGGAGCCTATGAAAAGGGCAATTTCACATAGTCAGTCTAATATGATATGCCACTCACACCTCTATTCACTTACCCATTGATTCATTCATTTGACAATATTGATTGAACTTCTATCCCAGGCCCTGCACTGTGTGAGGCATTTTTACATTCACTCATTCATCCATCCAGCACCTTTACTGAGTACTCCCCTGAAGCCAGCCATTGTGTTCAATGCTTAGCTTACCCCTACAATAATCCAATAATAGGAACAGTTATCATCTGCCCTATTGTGTAGATTTAGAAACTGAGTCTCAAAGAGGTAAAGTGACTTTACATGGCAAAGTTTGTCACCAGTTGATATCAGTACCTGGCATCCCCTAGGAATTTCAATAACTATCCCAAATTTTTTGGATCCCAGTCAGCCAAAGTAGGAGATGAAACCAGTTGTCCTTTCTACAACAGGGGTCTTCTTAATTTCCAAATTATATTCCACACATATTTTTCATTTAATCATTTTTCCTCATCAATCTTCTGAAGATCAAATAGCAAGAATTATTATCCCTATTTATTATAAAACTAAGGCTCAAATAGTATTTGTGATTGGCCAAAAGTATACCATTTAACTTAAAATGGAACTAACACTTGCACCCATATGTCCCACTGCTAATAGCATATGCCTGTAAGACACTGCCCTGGTCCAGCTCTGTATAACAGATTTTCCCTTCAGAGAACAAAACCACGGAGCTAATGCCCAAGACAGATCTTCAGAATTATCTGTGGCAAAGTTAGTGTGTGTGTGTTGATATTCTTTGTTGTTGTTGTTGTTGTCGTCTTGAGATAGGGCCTTGCTCTGTCATCCAGGCTGGGGTTCAGTGGTGCAATCACAGCTCACTGCAGCCTTGAACTCCTGGGCTCAAGTGATCCCCTCAACTCAGCCTCCAAAGTCGCTGGGACTACAGGTTCATGTGCCACCATGCCTGGCTAATTTTTTTTTTTTTTTACAGTTGGAGTCTTGCTGTGTTGCCTAGGCTGGTCTCAAACTTCTCGCCTCAAGCAATCTTTCTGCCTTGGCCTCCCAAAGTGCTAGGATTACAGGTGTCAGCCACCATGCCTGGCCTGTTTTCATATTCTTGATCATAGCCAGAGTCTTAAGATTAGTTAAGCCCTTAATCCATCCAGGTATTAATCAGGAACATTTCCTTGTGTTTTCTGATATTCTTGGTTTTCAAGTGTTTCTTTTCTTGCATACTAG
Seq C2 exon
GGGGAGTGTGGGAGCTGTGTCAATACTCCCAGCTGCCCAAGGTGGAGTAAACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136011-STAB2:NM_017564:53
Average complexity
IR-S
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:
PF0246917=Fasciclin=PD(24.1=65.3)
A:
NA
C2:
NO
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:
GGTGACCTCTTTCTGAATGGCC
R:
GGTTTACTCCACCTTGGGCAG
Band lengths:
200-1831
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)