GgaINT0126079 @ galGal4
Intron Retention
Gene
ENSGALG00000008898 | GRIN1
Description
glutamate [Source:RefSeq peptide;Acc:NP_996862]
Coordinates
chr17:1020236-1020985:-
Coord C1 exon
chr17:1020864-1020985
Coord A exon
chr17:1020411-1020863
Coord C2 exon
chr17:1020236-1020410
Length
453 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGC
5' ss Score
7.42
3' ss Seq
CGTTCCTCTGTTCATTACAGGAG
3' ss Score
9.28
Exon sequences
Seq C1 exon
TGAGGATGATGCGGCAACGGTGTACAGATCAGCAGCCATGCTCAATATGACGGGCTCCGGCTACGTGTGGCTGGTGGGGGAACGGGAGATTTCGGGCAATGCCCTGCGCTACGCCCCTGATG
Seq A exon
GTAGGCACCCACCAGAGGCATCCACCCTGCTGCTGGACAGAAGCTTGTCTGGGGCTGGGGCAAGTGGTCCAGGGGCACACCATGCCATGGTGGTCCCAAGCATGTGTTGAATCCCACTGTGCTCTCCTGGATCTGCATGGAGTGGCAGCAACCTGAGAGCCCTGGCCATGCTGCCATGCCCCAAACCTAGCTGTCCAGGGCTTTGAGGCTGATTGTCACCTGAGGAAATTGCTTTGGCAGTGGGATGGGGATGGAGCACTGATGTCAATGGCTCACATTGCATCACCCTTTTGCAGGAGAACGATGCCAGCCCAGCACTGAAGGTCATGCAACTCCCCCACTGCCTCTGAAGGGTCCCCAGCCCCATGGCTGTGTGCTCGCTTGCCCCAAACCCTACATGTGGGAACAACACCAGAGCCCAGTGGGGCTGATCCGTTCCTCTGTTCATTACAG
Seq C2 exon
GAGTCATCGGCTTGCAGCTCATCAATGGGAAAAATGAGTCAGCCCACATAAGTGATGCAGTGGCGGTGGTGGCCCAGGCTGTGCACGACTTGTTTGAGAAGGAGAACATCACCGACCCACCAAGGGGCTGTGTGGGCAACACCAACATCTGGAAGACGGGGCCCCTTTTCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008898:ENSGALT00000040369:6
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=0.068
Domain overlap (PFAM):
C1:
PF0109423=ANF_receptor=FE(12.9=100)
A:
NA
C2:
PF0109423=ANF_receptor=FE(18.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGGATGATGCGGCAAC
R:
TTGAAAAGGGGCCCCGTCTTC
Band lengths:
294-747
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]