GgaINT0126092 @ galGal4
Intron Retention
Gene
ENSGALG00000008898 | GRIN1
Description
glutamate [Source:RefSeq peptide;Acc:NP_996862]
Coordinates
chr17:1009534-1012389:-
Coord C1 exon
chr17:1012244-1012389
Coord A exon
chr17:1009645-1012243
Coord C2 exon
chr17:1009534-1009644
Length
2599 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CTTATACATATTCATTTTAGGAT
3' ss Score
8.75
Exon sequences
Seq C1 exon
GTGTGTTTATGCTGGTGGCTGGAGGTATTGTTGCCGGGATATTTTTAATATTCATAGAAATAGCTTACAAAAGGCATAAGGACGCGCGGAGGAAGCAGATGCAGCTGGCGTTTGCGGCCGTTAATGTGTGGAGGAAAAACCTGCAG
Seq A exon
GTAGGACAAACCGTTTTTAGAGCAAATCTCCAACAGGTGCGTTTTCCATTCCTTCACCAAATCAATGAATGCAGAGCTGTGGATTAGCAAGGGGTCCCCTGTCCCATCCCCAGTAACTCCCCTGGGCGTTACTGGGCTGCTGGCGATCTGTGGGGCCCTGCTTGTCCCCAGGGCCACACATGGCCAATGCCACCCCCCTGGGAGGTGTCGTACCCAGCTCTGTCCAAGACAGAACCTGGTCCAAATGCCATGGTTTGCCCTTGGCAGTGCTGGGGACAGTGACCTTGCTCTGCTGGGGACCATGTGTCAGAGCTGTATCTCTGGCAGCTCCTGGTGCAGGAACTCTGATATGCTCCAACCACGCTCACCAGCAGAGAAAGGGAGGGTTCACCTGCAGCTGCCAAGCATCCCTTCCCTGCAGTCCTGAGCATCCCTTCCCCATGGTCCCGAGCATCCCTACCTCAAAGCCCCCTAGCATCCCTGCCCTGGGTCCCTGAGCATCTCATCCCCCTGGTCCCATGCTGCCCATCGCTGCAGTCCCATGCTGCCCATCCCTGCGGTCTCATGCTGCCCATGTGCAGAAATGCTCCAGGAATGGAGATTTCCATCGCCTCCTCCTCCCTCCCCACCCCTGGGGCTGTGGTACCCCTGCCGCATCCGAAGCGGTTCCAAAAGAGAGGCGGTATGTGCTCTTATCACCTGGGGACGAGGATCTGCCCCCAGAATCTCCCATCCCTGTAGCACCCCAGGTGAGAGGAGCCCGGGGGCAGCCACGTGCCTGCTGCTGGCACCGAGCCCCGGGCATGTCCCCGAGCCTCCCCTGCCCTCACCACCAGGACCACCTGGCTGCTCTCCATGAACCCTCCGGGTTGCGTCCCGCTTTGGGGAAGCAAGCCTGCATTCAGAGCGTCAGGCGTCCTTTGGGTGGTGAAAGGCACTCAGCCCCCGATGATGGGTGCCCCACGGAGCAGTGGGGGATGCTCAGGAACGTCATCTTCCCAAAGGCAGCGAGGGGAGCACGAGGCCGGGCTGCTACATCCTGAGAGCTCGCCGGGTTCAGTTCACTGATACGAGTTTCGGAAGAGCCGTTTCTTTTTTTATTATTATTTATTCTTCTTCTTATTTTTTTTTCCTTTGCTTCCAAAAAGCAGCAGCAGCGACGGGGTTAAGGCTGCTGGGACAGAGCACACTAGTTGCACTGCCATTTTTCACTTGCCAACCTTCTAGAAAATACTGCACTGGGTCCTTGGGCAGAGTCTGTGGGACTGTGAGCAAAGCATGCTGCCCTGTGGGGATAAACAGCCTCATGGTAAAGAGCCGTTTGACATTGTAAGACTTTTCCACAGGAGGAAACGTCAGAGCACTAGTATCTGGTACATTGCTAGAAGGTAGGCAAGTGGAAAGATTTATTTGTTAAAACAAACAAACAAAAATAATGGTTTTTGGGATCACAGTTTTGCCATGGCTATTTCCTGAGATGCCATGGAAGAAAAAGACATTTCATTCCATTCATCTTGCTTTCCTTTCCGTTTGTGCATGTCCGCAAAAGAGAGAACTGAGAAGGAGGAGCAAATGTATCCCCGAGCATGCTCTACGCACCAGCGGGATACATTTTGGTTACCCCCGTGCGGTAGCAGAGCCAGACCTGGTCACTCCGTCCCCCGTCGGCAAGGTCACACTCATTGGCACGAAAGCAATTGGGGAGGAATCGTTGTCAGCGCCCGCCGCCGAGCGCGGCCGGTCCCCACGGCTCGCTGCCCCCGCACCGTGGCGGCTGGTGCTCCCAGCCTGCGCCAACCAGGTCCGACTCGCTAACTCCAATGCCTACATTTTTCAGTTCTGTTTCTCTTTGAGTTCATCCCGACCCGATGACATCATAGCGCTAATATGCTTTGCTTCCTCCCTTTCTTTTCCTTTTCTTTTTTTTTTTGGTTTGGTTTGGTTTTGTTTTGTTTTGTTTTTTTCCTTTTTCTTCCAATTTCCTTTTATTTATTTCTTTTTTTTTTTTTTTAGCTGGTTTTACTTTGGAAAACAACCAACCAACCAAACAAAACCACCACCACCACAAACACCACCGACAACCACGTTCGGCTTTGCACAAACGCGTCATTTAAATTTTGGAATACCTTTTTTTGCAGAATACCCATACAATGACTTCTCTTTCGATGCAGTCCTCTCTCTCTCTTGTGGCGCTAGGATTCAGCCTCAGAGCAGGCGCTGGTAGTGCAGGAGCAGCATCCCACCTCCCGCTGTAGGCAGGCTGGCGGTGGCGGCCAGGGGCAGGGCCAGGCAGCGCATCCCCAGGTTCTCTCCCAAGGAAGCGAGGTCAGCGCCACAGGCTGCCGGCAGACGCCCAGGAGACGCAGGGCTGCTCCCAGAGGGGTTTCCAGTGCTGCGGATGCGAGGCCGGCCCCGTAGCTGTAGCAGCGAGGTGGCCGCGCTGTGCCTGCTGGTCACAGAGGCCCTTGGAGGACTGGGAGTGACATCTCCGGTAGCGTGCTCACCCAAATGAAGGACATGACACGGGGCAGTATTCAAGTAGATTTAGTGTTTCCAGCAGCACACTAGAGATCTAATCGCTTATACATATTCATTTTAG
Seq C2 exon
GATAGAAAAAGTGGTAGAGCAGAACCTGACCCTAAAAAGAAAGCCACTTTTAGGTCCATCACCTCCACCCTGGCCTCCAGCTTCAAGAGACGTAGGTCCTCCAAGGATACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008898:ENSGALT00000040369:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.784
Domain overlap (PFAM):
C1:
PF0006021=Lig_chan=PD(3.4=18.4),PF105624=CaM_bdg_C0=WD(100=59.2)
A:
NA
C2:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]