HsaINT0149360 @ hg19
Intron Retention
Gene
ENSG00000097033 | SH3GLB1
Description
SH3-domain GRB2-like endophilin B1 [Source:HGNC Symbol;Acc:10833]
Coordinates
chr1:87188223-87190088:+
Coord C1 exon
chr1:87188223-87188356
Coord A exon
chr1:87188357-87189995
Coord C2 exon
chr1:87189996-87190088
Length
1639 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
TTTCTTTTCTATATTTATAGAAA
3' ss Score
8.32
Exon sequences
Seq C1 exon
GTAATGCCCTTATTAAATGTGGAGAAACCCAAAAAAGAATTGGAACAGCAGACAGAGAACTGATTCAAACGTCAGCCTTAAATTTTCTTACTCCTTTAAGAAACTTTATAGAAGGAGATTACAAAACAATTGCT
Seq A exon
GTGAGTTGAAAAATGTCCCCTTTATTTAGTAAAATCATTTAGATATATATACTTTTTAATGAATAATTTGGCCTCTTAATGACTGTGTAGATGTAGTGGATTACAAAATTAAATAATCTAGGTCAGTGCATGTTCACCAGAACACAAAATTAAACCAAAATAAAAGACTACTGAACATTTACTCCATTTGTGTGTCCTACAGTGTTATTGAGATGCCTTTATCCCTTTTCATTCATTACCAACGCTAAAATCTATAGAGAGGTTCCTGGAATGATTATGAAAATATGGTCTAAAATATCACCATAGTATATATACCGTGTAGCTCTTCATTTTTTAGGATTTTAACTTATTTTCTTAGTGATAGAGAATGAAAATTTTCTAAGAGTTTTACAAAGCTGCTCTTATAAATACTTCAAACTTTAATTTGCAGATTTCCTATTACAATATATTATAGAAACTTTGAATATGTTCACAATGGATTTGTCTCTGTATAAACAAATATTTGGCCTGAGACAGAAGAACTATCAAGTTAAAGTATGATTTAAAAGATATTAGCAGCCGGGCGTGATGGCTAACGCCTGTAATCCTAGCACTTTGGGAGGTCAAGGTGGGTGGATCACTTGAGGTCAGGAGTTTGAAACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAAAATTAGCTGGGCATGGTGGCAGGTGCCTGTAATTCCAGCTACTTGGGAAGCTGAGGTAGGAGAATTGCTTGAACCCTGGAGGCGGAGGTTGCAGTGAGCCAAGATCGTGCCACTGCACTCCAGCCTGGGGGACAGAGTGAGACTCCATCTCAAAAAAAGTGAAATAAAATAAAATAAAATAAAAATTAGCTTATCAGTGCAATGAAATTTGACATATGGAATCTAAGATTAAAGCAAACTGAATTATAATAAACTTACATACTATACAGAAGCTTGAAATTCCCTGAAGAATTCTAAGATACTATACTAATGTTTATTCATTATTCTGTAAGTTTGAAATTCCATTTTGGAGTGGTTGGGTTGCATTTGGTGCTATGACACATTAAGTGCAGCCCACCCAATCCTTGAGGTAGGACACCAGGCGTCAAGGAACCCTTGCCCCAGGCGTATACTTCCTTCTTTCTAGGCACTTTCTGGATAATCTGTAACAATTTGAAAGTCAGTCTGGCCACTAATGACGTTTTGGGCTGCACAATTCCTTGTAAAGATAGACTGTCTTGTGGAATGTTTGGCAACATTTCTGGCTTCTGGCTAGCAGACTCCAATAACATCCCTCCACCAATTGTGACAACCAAAAAGGTATTGCCAAATGTTCCCGAGGCAGGGACAGGATCATAAAATATTAAAACTGATATTCCTTTGTTTCCATCATTGCCTGCCATCTTTCCCAGACACTTACAATGTTTCAATTATTTATTTTAAAATTTAAAACAGTAACAAGGGGGTGGGGGGGGGCAGATACATGAATGGTAACTTTATAGCCAATTTTGTAGTCATAGATCTTTATCAAGTGATACATATGTTTACTAGGGAATAATACTTTAAATGTGTATGCTCTTAACAGAATTTTAGCATCTTTAGCCCTTATTTTTTCTTTTCTATATTTATAG
Seq C2 exon
AAAGAAAGGAAACTATTGCAAAATAAGAGACTGGATTTGGATGCTGCAAAAACGAGACTAAAAAAGGCAAAAGCTGCAGAAACTAGAAATTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000097033-SH3GLB1:NM_016009:4
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=0.226
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(17.9=100)
A:
NA
C2:
PF0311413=BAR=FE(12.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCTTATTAAATGTGGAGAAACCC
R:
TGAATTTCTAGTTTCTGCAGCTTT
Band lengths:
222-1861
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)