HsaINT0160088 @ hg19
Intron Retention
Gene
ENSG00000136011 | STAB2
Description
stabilin 2 [Source:HGNC Symbol;Acc:18629]
Coordinates
chr12:104030889-104031990:+
Coord C1 exon
chr12:104030889-104031014
Coord A exon
chr12:104031015-104031793
Coord C2 exon
chr12:104031794-104031990
Length
779 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
TTTTGCTGTTGCCTCTCAAGCCA
3' ss Score
5.59
Exon sequences
Seq C1 exon
CCATCCCTGAATGTGCAGCCTTGCTCTGCCCAGAAAATTCCAGATGTTCGCCTTCCACTGAAGATGAAAACAAACTGGAATGCAAATGCCTTCCCAATTACCGAGGCGATGGCAAATACTGCGACC
Seq A exon
GTGAGTAGAATTTAGATTCTGCTAGTTTATTCATTGAGATGTTTAGGTTATTTAACAGGAAAAAAAAATCTCACAACCTCCTTAACACAATGACCATTTCTATTTCTCGCTGTGTAGTTGAGTGAAACGTATATAAAAGGTGCCAAGCAAAATGCTCAATAAATGGCAGCTTCTCCTTCTCTTATGAAAGCACATATAGAGATTTTTATGTTTCCATATCACCTTAATCAATGTTAGAACATTTAATGCTTCTTATTTTATCTTTTTGATTTTATTCACTTTATAAAAAGCTGTATTATGTATCAGTTAAAAACATGGACTCTCAAGCCAGACCGTCTGGGTTCAGTCCCAGATCTGCCTTCTACTGACTACATGACCTTTAACCTGCCGTGTCTCAGTTTTTCTGTCTATGAAATGGGGATAATAATGGTACCTACTTTCAGGGATTATTGTAAAGATTAAATGAGTTAATACATAGCAAATTCTTAGAGCAGGGCTTAGTACATATTATAAATTCTGTAAGTGTTAATGTTTTCTTTCATGCTGTTTTATATTTAACTACACACACAAAATGGCCTACTAATATATCAACACAATATCTGTACAATTTCTGATGGCCATACATAAATCTGTCTGGTTCAGGGGGAAATGAAAGGAAATGTTTGTCTTTGAAAACTGTGAGTTGCCTTTGAGGTTTTGATCCACTGTTGCTCACGGTTCAGTTTTCCTTCTCCATCCCCGTTAACTAACTGCCTCTCATTTTGCTGTTGCCTCTCAAG
Seq C2 exon
CCATCAATCCATGTTTACGAAAAATCTGCCACCCTCATGCTCATTGTACGTACCTGGGACCAAATCGGCACAGTTGTACATGCCAAGAAGGCTACCGTGGGGATGGCCAAGTGTGCTTGCCTGTGGACCCCTGCCAAATTAACTTTGGAAACTGCCCTACAAAGTCTACAGTGTGCAAATATGATGGGCCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136011-STAB2:NM_017564:7
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:
PF129472=EGF_3=WD(100=79.1)
A:
NA
C2:
PF129472=EGF_3=WD(100=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCCTGAATGTGCAGCCTTG
R:
TCCAGGCCCATCATATTTGCAC
Band lengths:
318-1097
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)