HsaINT0069902 @ hg19
Intron Retention
Gene
ENSG00000089639 | GMIP
Description
GEM interacting protein [Source:HGNC Symbol;Acc:24852]
Coordinates
chr19:19753344-19754455:-
Coord C1 exon
chr19:19754320-19754455
Coord A exon
chr19:19753429-19754319
Coord C2 exon
chr19:19753344-19753428
Length
891 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGG
5' ss Score
6.91
3' ss Seq
ATTACACTCCCCTCCCCTAGGAC
3' ss Score
10.56
Exon sequences
Seq C1 exon
CGACGCGGAACCGAGGCGGCGGCGGCGGCTGCGGCGGCAGGAAATCGGGGCTCGGCCCCGCCGGCGCGCGACCCCATCCCCATCCCGGTCCCTGCAGAGCGATCCCCGGGCCCAGATATGGACGCAGCAGAGCCGG
Seq A exon
GTAGGGGGTCGGGGATCCGGGAGGGGCCTCCCCCGACCATCCCCTGCTTCCTACATTGAGGGCACACACTTGTCCCGCTCCGTCCTGAGAGCCAGGAGAGGAGTTCCTGAATGGGAAGGACCCAGGGATCCTCCATTGTGGGGAGCCCTGTGCCCGGATGGGTTCAGGACCCCAGCCCTTCACTCCCCCTCCCCCTTTTGATCCCTCACCCCAGACGCCTGGGGGAGGGGGCCCAGGAAGGGGAAGTGACTGCTTCTGCTTCTGATTTTTGTGATGGGGGCAGGGTGCCACGACTGCTGAGGGAGAGGGCAACGCGGTAGGATCCCCACAGGGCCCCTCTGTAGCCCTGGGGAGTCGGCAGTGCTGGTCTAGGCCCCTTAGGAGAGGGGGCAGGGGGGCAGCAGTAGAAATGTGGCGGGGTCCGACTTGGTGTTTCCGGCCGTCTTTGTGTCTGTGTTGTGTATGTGGAGTGTCATTCGGTCTTTATGTCCCTCACGGCTTCAGTCTCTCCATGTGTGTTTCTGCCCCAGGCTCTGCCTGGCTGTCCCTTGTGTATTTCCATCTGTCTAGCCCGTGGTTCCATTGTCAGACCGGCTTTCTTCTCGGGACAGCCTGGTTGCATCTGGGGCATCTGTTTTGTTGGTTTGCTTCTGGGTGCAGGCAGACCCAGGGAGTGGGTGTCTCTGTTCCCCGAGCAGCTGTCTCTGGTCTCTGGTGGTGTGTGAGTCCATCTGCCTGCCTCGAGTTGGCCCCAACCAAGCCCCCCCCAGCCCTCTCTTTCTCTCTCTCACTCTTCCCTTTCTCTTCCACCCCCTCCAAATGAGACTGGTTGAGGTGCCGTGGGTGGAGGGAGGCAGTGGTTAGCCCATGTATTACACTCCCCTCCCCTAG
Seq C2 exon
GACTCCCCCCAGGTCCTGAGGGCAGGAAGAGGTACAGTGACATCTTCCGGAGCCTGGACAACCTCGAAATCTCACTGGGGAACGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000089639-GMIP:NM_016573:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.414
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGGAAATCGGGGCTCG
R:
ACGTTCCCCAGTGAGATTTCG
Band lengths:
185-1076
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)