HsaINT0069904 @ hg19
Intron Retention
Gene
ENSG00000089639 | GMIP
Description
GEM interacting protein [Source:HGNC Symbol;Acc:24852]
Coordinates
chr19:19747726-19748370:-
Coord C1 exon
chr19:19748174-19748370
Coord A exon
chr19:19747839-19748173
Coord C2 exon
chr19:19747726-19747838
Length
335 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TCAAACTTCTGTCTTCTCAGCTC
3' ss Score
7.33
Exon sequences
Seq C1 exon
GTGACGCTGAGTCTCTTCGGGCTGCGGGGGGCGCAGGCAGAGCGTGGCCCCCGCGCCTTCGCCGCCCTGGCCGAGTGCTGTGCGCCCTTTGAGCCGGGCCAGCGCTACCAGGAGTTTGTACGGGCGCTGCGGCCCGAGGCCCCGCCGCCCCCGCCGCCCGCCTTCTCCTTCCAGGAGTTCCTTCCCTCCTTGAACAG
Seq A exon
GTGGGTCACTGGAGCAGGGAGTCGGGAACGAGCCCCGGAATCGCGATGCCAGGCTGTTGGCACCGCAGGCTGGTTACTCGAGGTTAGAGAACGCAAAGCCTTAGTGGAATTTAGTACTCCAGGCTCTCGGGGGCCATAGGAGGGTGAATGGGTTGTCCCAGTCCTAGGGGCAGGGGCAGGAATGTGGGGCTACTGTATTTCAGGGGCCACAATGCCCTGGGTGTCAGGGTTTGCAGACCCAAGTGCTTGGAGTTGGTACCTAGACATGATGCCTGGGTGCCATCACCCCAGGCCAGTTTCCTGGGATTCAAACCTTCAAACTTCTGTCTTCTCAG
Seq C2 exon
CTCCCCTCTGGACATCAGAAAGAAGCTCTCTGGGCCTCTTCCTCCAAGGCTGGATGAGAATTCAGCTGAGCCAGGCCCTTGGGAGGATCCGGGCACAGGCTGGCGCTGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000089639-GMIP:NM_016573:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.379 A=NA C2=0.897
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGCTGAGTCTCTTCGGGC
R:
CCTGTGCCCGGATCCTCC
Band lengths:
294-629
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)