GgaINT0126091 @ galGal4
Intron Retention
Gene
ENSGALG00000008898 | GRIN1
Description
glutamate [Source:RefSeq peptide;Acc:NP_996862]
Coordinates
chr17:1012244-1013234:-
Coord C1 exon
chr17:1013125-1013234
Coord A exon
chr17:1012390-1013124
Coord C2 exon
chr17:1012244-1012389
Length
735 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
AACTTTCCTGCTTATTTCAGGTG
3' ss Score
9.74
Exon sequences
Seq C1 exon
GTCCCATGAGAACGGCTTCATGGAGGATTTGGACAAGACTTGGGTGAGGTATCAGGAGTGTGATTCCCGTAGCAATGCCCCAGCAACACTCACCTTTGAAAATATGGCAG
Seq A exon
GTTTGTTCTGCAAACCTCTTTCTTCCTCTTGGCTGGGTAGCCTGCTTTCACTCAAGACATTCTCCTCTCCTGAGCTCTTCTCCCGGGCCAAAGCTCTGCTTCTTCTGGGTTTGTGCTTTCCTAGCGCTGTGAAGCTGCTGTGATGGGCTCCCATCCCACCTCATCCAAAACAGCTCTGCAAAGCTTTCTCCACCTTCCCTGGGCAGCCTCCTCAACCCAGTGGCCGCTGTGACTGTCCCTCCCTCCCCTCCCTGCAGTCTGGCTGAGCTGCAGCTGCTGATGTGCAATGGGTGCGGAGGGAGGGGAGCAGCACTTGGGATGGGGCGAGAAGGGAGCTGGCTGCAGCGGGGCCACCCCAGGGAGTGTGCTGGGGCAGAGGGCAGGTGTGATGGTTGATGCCCTGTTTTCCTCTTCTTGGGCCTGCTTGGTACCCCCAGGCGGGCTCTCTTCCCCCTGCCAGCGCAGTGCAAGGTTAGGAGTGTCCCATGGGCACCACTGAGGGTGGGATGGAGCACTTTATTCGATTTCTTGCAGTGCCAGTGCCTGACTGCAAGGAGCCCATGCAGACACCCCGTACCCACCACCCCATGCGCATCCCCATGGGTGCCCCTCTGGGACTGGGAGGGTGGGGAGGCTGGGGCTGGCAGATGCCACTCGTGCTGAGCACGATGCAGAGGACATGAAGTGTCATGGTGCGATTCCCACTGCCCCCTGTAACTTTCCTGCTTATTTCAG
Seq C2 exon
GTGTGTTTATGCTGGTGGCTGGAGGTATTGTTGCCGGGATATTTTTAATATTCATAGAAATAGCTTACAAAAGGCATAAGGACGCGCGGAGGAAGCAGATGCAGCTGGCGTTTGCGGCCGTTAATGTGTGGAGGAAAAACCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008898:ENSGALT00000040369:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.010
Domain overlap (PFAM):
C1:
PF0049715=SBP_bac_3=PD(5.0=44.7),PF0006021=Lig_chan=FE(13.9=100)
A:
NA
C2:
PF0006021=Lig_chan=PD(3.4=18.4),PF105624=CaM_bdg_C0=WD(100=59.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCCATGAGAACGGCTTCAT
R:
TGCAGGTTTTTCCTCCACACA
Band lengths:
255-990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]