GgaINT0126084 @ galGal4
Intron Retention
Gene
ENSGALG00000008898 | GRIN1
Description
glutamate [Source:RefSeq peptide;Acc:NP_996862]
Coordinates
chr17:1016645-1017073:-
Coord C1 exon
chr17:1016946-1017073
Coord A exon
chr17:1016810-1016945
Coord C2 exon
chr17:1016645-1016809
Length
136 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
CTGCATGGACTTTCTGGCAGGTG
3' ss Score
6.55
Exon sequences
Seq C1 exon
GCCGGCCCACTGTGGCACTGTGTTGCTATGGTTTCTGCATCGACCTGCTCATCCGCCTGGCTGGTGTGATGAACTTCACCTATGAGGTTCACCTGGTGGCTGATGGTAAATTTGGTACCCAAGAGCGG
Seq A exon
GTGAGTGTAGGCAGATTGGGATATCATTTTTTTCACATCGTATGTCAAAACATGGCCAAGCCGTTCTCCGGAGCAGAGCTGGCCAGTAGGGATGGGCGATGGGGCAGGGGCTGATCCTGCATGGACTTTCTGGCAG
Seq C2 exon
GTGAACAACAGCAACAAGAAGGAGTGGAATGGGATGATGGGGGAGCTGCTGAGTGGCCAGGCGGATATGATTGTGGCTCCCCTCACCATCAACAATGAGCGGGCACAGTACATCGAGTTCTCCAAGCCCTTCAAGTACCAGGGTCTCACCATCCTTGTGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008898:ENSGALT00000040369:11
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=0.055
Domain overlap (PFAM):
C1:
PF0049715=SBP_bac_3=PU(9.7=76.7)
A:
NA
C2:
PF0049715=SBP_bac_3=FE(15.9=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:
CACTGTGGCACTGTGTTGCTA
R:
TGAAGGGCTTGGAGAACTCGA
Band lengths:
254-390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]