GgaINT0126087 @ galGal4
Intron Retention
Gene
ENSGALG00000008898 | GRIN1
Description
glutamate [Source:RefSeq peptide;Acc:NP_996862]
Coordinates
chr17:1015369-1016123:-
Coord C1 exon
chr17:1016011-1016123
Coord A exon
chr17:1015518-1016010
Coord C2 exon
chr17:1015369-1015517
Length
493 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
GCTCTCCTCTCTCCTTCCAGGTG
3' ss Score
14.07
Exon sequences
Seq C1 exon
CCCATTTGGACGGTTCAAAGTGAACAGTGAGGAGGAGGAGGAAGATGCCTTGACACTCTCCTCAGCCATGTGGTTCTCCTGGGGAGTCCTGCTGAACTCCGGCATTGGAGAAG
Seq A exon
GTGTGTTGCAGCAGGCAGTGGTGCTTCTGTGCCCTGAACACTGCCATGGACCCACAGGGACACAAGAGGGGCCTGTGCCCCTTTCCACATGGTCTTATCTGTGCCCTGGGACACCAGTGAAGAATGGTACAGCTCTTGTCCCCTGAGACTTCCTCAGAGGGGGACTTGGGGATGCTGGGGGGTGGCACACTCATGGCACAGCTGCTGCAGACTGTCCTGCCAGCAGGGACAGGCAGGGAAAAGTCCTTCCTGGGCTCTTTCCTGGGGTTACTCATCCAGCAGGGTTCAATGCATCATGCGTAGGAGCTGTGTTTTTCTTTGTTTGGGTAACGCAAAAGCTCTTCACACAGCTGTCACATCTGTACATGCCATCTGTAGATGCCATTGTACATGGGCACATCTGTAGATGCCACTCATCTTGTGTGAGGTGGTCACAGCTTTGGTGACCAAGTCAAGCCCTTGTGCTAGTCTGAGCTCTCCTCTCTCCTTCCAG
Seq C2 exon
GTGCTCCCCGGAGTTTCTCTGCTCGTATTCTGGGCATGGTGTGGGCTGGCTTCGCTATGATCATTGTGGCTTCCTACACTGCCAACCTAGCTGCCTTCCTGGTGTTGGACCGTCCCGAGGAGAGAATTACGGGCATCAATGACCCCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008898:ENSGALT00000040369:14
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=0.040
Domain overlap (PFAM):
C1:
PF0049715=SBP_bac_3=FE(11.2=100),PF0006021=Lig_chan=FE(14.3=100)
A:
NA
C2:
PF0049715=SBP_bac_3=FE(14.4=100),PF0006021=Lig_chan=FE(18.4=100)
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:
CCCATTTGGACGGTTCAAAGTG
R:
CCGGGGGTCATTGATGCC
Band lengths:
262-755
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]