GgaINT0126088 @ galGal4
Intron Retention
Gene
ENSGALG00000008898 | GRIN1
Description
glutamate [Source:RefSeq peptide;Acc:NP_996862]
Coordinates
chr17:1014454-1015517:-
Coord C1 exon
chr17:1015369-1015517
Coord A exon
chr17:1014612-1015368
Coord C2 exon
chr17:1014454-1014611
Length
757 bp
Sequences
Splice sites
5' ss Seq
CGGGTAATG
5' ss Score
6.86
3' ss Seq
GCCCTGCTGTTGCCTTTCAGCTG
3' ss Score
10.75
Exon sequences
Seq C1 exon
GTGCTCCCCGGAGTTTCTCTGCTCGTATTCTGGGCATGGTGTGGGCTGGCTTCGCTATGATCATTGTGGCTTCCTACACTGCCAACCTAGCTGCCTTCCTGGTGTTGGACCGTCCCGAGGAGAGAATTACGGGCATCAATGACCCCCGG
Seq A exon
GTAATGATCCCTTGCTTCATTTCCCTTTCCCTGCCCATCTCCAGGCAGAGGTGCAGATGCCTCCAGTGGGTACCTCCTGGCTTGGTGGCTGGTAGCACCTAGAGCCCTATTTAATGTGGGTCTGTGCCTGAGGCTGAGCCCCTGTGCTGGGTGGGGATGGGAATACACAGGTAGGGATCAGCAGAGAAAAAGCCTGTCCAGAAACAGCACGAGGCCAGACAAACTGCTGCCAGTTCCTGGAGAGCCTGCACTAACCAACGAGGAAACGATTCATTATGGATGAGTTATAGCTAATGAAATTGTCCCTGCGGTGCAGTCAATACTCTCAGCAGATACCAGCGTGACTCAAACCCATTTCCTACTCTGGCAAGGACACAGTCACAGCCTATCAATCCGAGCAGCCAGGAATGCACCCCACAGCAGTGCCAGCCCACAGCATCCCACACCCCACAGCATCCTCTGCCCTCAGCACCATCAGCCCCATTTCATTGGGGGGTTCCTGCATCCTCAGTGCTGTGGAGTCCCTGTCACAGAGCATCCCCTGTCCACCACTGTGGCCCCAGAGCATCCCCTGTCCCATCCTGAGCACTGCAGCATCCAATGCCCCATGGCATCTGCAGCTCCACTGAGGAGATCGAGATCTTCCCTGGGAAACAGATTACTGAATGGGATGGGAAATCAGGAAACACAACTTTGGGGTGAGCCAGTTTGGTTGATGCAAGACAGAATAAATAGGAGCCCTGCTGTTGCCTTTCAG
Seq C2 exon
CTGCGCAACCCCTCCGATAAGTTCATTTATGCCACGGTGAAGCAGAGCTCAGTGGACATCTACTTCCGACGGCAGGTGGAGCTGAGCACCATGTACCGGCACATGGAGAAACACAACTACGAGAGCGCAGCCGAAGCCATCCAGGCTGTGCGAGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008898:ENSGALT00000040369:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0049715=SBP_bac_3=FE(14.4=100),PF0006021=Lig_chan=FE(18.4=100)
A:
NA
C2:
PF0049715=SBP_bac_3=FE(15.3=100),PF0006021=Lig_chan=FE(19.5=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:
CTCCCCGGAGTTTCTCTGCTC
R:
TTGTCTCGCACAGCCTGGAT
Band lengths:
304-1061
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]