HsaINT0069908 @ hg38
Intron Retention
Gene
ENSG00000089639 | GMIP
Description
GEM interacting protein [Source:HGNC Symbol;Acc:HGNC:24852]
Coordinates
chr19:19635025-19635569:-
Coord C1 exon
chr19:19635415-19635569
Coord A exon
chr19:19635214-19635414
Coord C2 exon
chr19:19635025-19635213
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:ENST00000203556:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.224 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
Chicken
(galGal3)
No conservation detected
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