DreINT0075099 @ danRer10
Intron Retention
Gene
ENSDARG00000025728 | grin1b
Description
glutamate receptor, ionotropic, N-methyl D-aspartate 1b [Source:ZFIN;Acc:ZDB-GENE-051202-2]
Coordinates
chr5:29034079-29035010:-
Coord C1 exon
chr5:29034948-29035010
Coord A exon
chr5:29034177-29034947
Coord C2 exon
chr5:29034079-29034176
Length
771 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAT
5' ss Score
7.84
3' ss Seq
ATGTTGTGTCCTAATCCCAGGCA
3' ss Score
6.59
Exon sequences
Seq C1 exon
AGTAAAAACAGGAACTATGAAAACCTCGACCAACTGTCCTTTGACAACAAGCGAGGACCCAAG
Seq A exon
GTATATTTGCATGGTCAATGCACGCCGCCCAAAAAGTTATCTGAAAGTAGCCACTAGAAAAGCAGTCAAAACAATCAACAATCCGATTCCAGAGATCCTTATCCTGCCAGCACGTCTATTTATTTGTTTGGATTCTTTTTATGATTTCAATCGAGAATGGGTTATTTTTTCTGTTAATGCGTATACAAAAAAAAAAAAAAAAAAGAATCGCTCCCCCACCTCTCACTTTTTTATTTTTGTATAAAGGAATGCATGTATTGAAGCCAGCAAGATTGCAAGTCTATTCTTTTGACACAGTGCGTGGAGATCTGGTCGTGTGGGACAGGCACTGTCCAGATGTTACTCCCACCTTTCTGCAGCATTTCTTCTTTTTTGTTGGGTTTTTTTTTTTGGTTTTGGTTGGGAAAGAAGCCACCACCACCACCTTCACCTGTTTTTTGCTTTCCGGTTGCATCAATCTTCTTCTCCCTCTTCCTCTAACATGCACGTGTTTCCTTGGAATCTTGATTCCCTTGAGTTTGCATGTGAAATGCAGATTTTTTTTACCTGCTCCAAGCTTATTTAAGTTTTTTTGAGTTACGCAGATTATCTCAGAACGTTTTTATTTTTACTTCATTTTTTAAACCCCTTCTCCCCTTACCCCCCCAAAAAAAAATAAAAAAAAGAGAGAGAGAGATGGAGAAAAAAAAAAAAAAACGAAAGGGCTCAAAAGAGCATGGTTCATGGTGGGGATGAGTCAACTTCTTGACTAATGTTGTGTCCTAATCCCAG
Seq C2 exon
GCAGAGAAAGTCCTCCTGTTCAGCCAAGACACAAATCTGACGGCTCTGCTCCAGGAAGCCAAGGAGCTTGAGGCCCGAGTTATCATCCTGTCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000025728:ENSDART00000034849:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.381 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0109423=ANF_receptor=FE(5.9=100)
A:
NA
C2:
PF0109423=ANF_receptor=FE(10.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
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]