HsaINT0069908 @ hg19
Intron Retention
Gene
ENSG00000089639 | GMIP
Description
GEM interacting protein [Source:HGNC Symbol;Acc:24852]
Coordinates
chr19:19745834-19746378:-
Coord C1 exon
chr19:19746224-19746378
Coord A exon
chr19:19746023-19746223
Coord C2 exon
chr19:19745834-19746022
Length
201 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGG
5' ss Score
4.48
3' ss Seq
CCCTGTGACCTTCCCCACAGTGC
3' ss Score
10.56
Exon sequences
Seq C1 exon
ACCTGGGAGACGGGCTGGAGAATGGGCTGGGCAGCCCCTTCGGGAAGTGGACACTGTCCAGCGCGGCTCAGACCCACCAGCTGCGGCGACTGCGGGGCCCAGCCAAGTGCCGCGAGTGCGAAGCCTTCATGGTCAGCGGGACGGAGTGTGAGGAG
Seq A exon
GTGTGGCCTGGGTTAATGACCAAATGACCTTTGCTGACCCTTGATCATCTCCCTGACCTGAGATTCCTACAGCCTTTCTGCCCCTGGGACCCACCCTAACCTGATGTCTCCCATGAGCCCCCATTCCTTGAGGATCCTTGTAACCTTCTCTTCCCCTACTGGTCCCTAATGACCTCCCTGTCCCTGTGACCTTCCCCACAG
Seq C2 exon
TGCTTTCTGACCTGCCACAAGCGCTGCCTGGAGACTCTCCTGATCCTCTGTGGACACAGGCGGCTCCCAGCCCGGACACCCCTTTTTGGGGTTGACTTCCTGCAGCTACCCAGGGACTTCCCGGAGGAGGTACCCTTTGTGGTCACGAAGTGCACGGCTGAGATAGAACACCGTGCCCTGGATGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000089639-GMIP:NM_016573:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.199 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PU(56.2=51.9)
A:
NA
C2:
PF0013017=C1_1=PD(39.6=30.2),PF0062022=RhoGAP=PU(11.0=28.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCGGGAAGTGGACACTGTC
R:
GCACGGTGTTCTATCTCAGCC
Band lengths:
294-495
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)