GgaINT0126083 @ galGal4
Intron Retention
Gene
ENSGALG00000008898 | GRIN1
Description
glutamate [Source:RefSeq peptide;Acc:NP_996862]
Coordinates
chr17:1016946-1017501:-
Coord C1 exon
chr17:1017366-1017501
Coord A exon
chr17:1017074-1017365
Coord C2 exon
chr17:1016946-1017073
Length
292 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
CCATTTTCTCTTGCCCACAGGCC
3' ss Score
12.47
Exon sequences
Seq C1 exon
ATCGTAACAATTCATCAAGAGCCCTTTGTGTATGTGAAGCCCACGCAAGCAGATGGGACGTGCAGGGAGGAATTCACCATCAATGGTGACCCTGTCAAAAAGGTCTTTTGCACAGGGCCCAACGAGACCATCCCAG
Seq A exon
GTAACTCCATCTGGCAGTGAGCACAGCAGCATCCCCAGCCCACCTGGTGTATTTGTGACCCCAGCAGATGACCTTTCTGCTGCCTCACTTCTGTGTGGGCTCCAAGGCTGCTTTGAGGGATTGCATCCCATCTTGCTGTCTCCTGACATGCTCCCATTCCCTTTGCCTCAATGTGGTTTGAAACTAAAGCCACACAGGTGGCTGCTTTCCCTGGGGAGAGCCATAGGTCCTGCATGGGGTCCCTGGCAAAGGGCTGCCTCCACGTGTCCCCCCCATTTTCTCTTGCCCACAG
Seq C2 exon
GCCGGCCCACTGTGGCACTGTGTTGCTATGGTTTCTGCATCGACCTGCTCATCCGCCTGGCTGGTGTGATGAACTTCACCTATGAGGTTCACCTGGTGGCTGATGGTAAATTTGGTACCCAAGAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008898:ENSGALT00000040369:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0049715=SBP_bac_3=PU(9.7=76.7)
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:
ATCGTAACAATTCATCAAGAGCCCT
R:
ACCAAATTTACCATCAGCCACCA
Band lengths:
252-544
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]