DreINT0075089 @ danRer10
Intron Retention
Gene
ENSDARG00000025728 | grin1b
Description
glutamate receptor, ionotropic, N-methyl D-aspartate 1b [Source:ZFIN;Acc:ZDB-GENE-051202-2]
Coordinates
chr5:29019262-29022560:-
Coord C1 exon
chr5:29022442-29022560
Coord A exon
chr5:29019375-29022441
Coord C2 exon
chr5:29019262-29019374
Length
3067 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
ATATGTGCTTCGCTCTGCAGCCC
3' ss Score
9.27
Exon sequences
Seq C1 exon
GAAATACCACGCAGTACACTGGACTCGTTCATGCAGCCCTTTCAGAGCACTCTGTGGTTACTGGTGGGTCTATCGGTCCATGTTGTGGCGGTGATGCTCTACCTTTTAGACCGTTTCAG
Seq A exon
GTAAAAGACAGCATTTTATAATGTAGAAATCCTGTCATCATTTACCTAAACAGTATTTTTTAGGTTAATTTATTGTTGATGTTTTTAGCATAAACCTATATACAGTTGAAGTCAGAATTATTAGCCCCCGTTTGAATTTTTTTTCTTTTTTAAATATTTCCCAAAGGATGTTGAACAGAGCAAGGACATTTTCACAATATGTCTGATAATATTTTTTCTTCTGGAGAAAGTCTTATTTGTTTTATTTCGGCTAGAATTAAATCAGTTTTAATTTTTTTTAAACCATTTTTTGGACAAAATTATTAGACCCTTTAAGGTATATTTTTTTCTCTATAGTCTACAGAACAAACCACTGTTATACAATAACTTGCCTAACTACTGTAACCTGCCTAGTTAACCTAATTAACCTAGTTAAGCCTTTAAATGTCACTTTAAGCTGTATAGAAGTGTCTTGAAAATTATCTAGTAAATTATTACTTACTGTCATCATGGCAAAGATAAAATAAATCAGTTATTAAAAAATGAGTTATTAAGCTATTATGTTTAGAAATGTGTTGAAAAAAATCAATCCATTAAACAGAAATTGGGGAACAAATAAACAGGAAGGCTAATAATTCATGGGGGCTAATAATTCTGACTTCAACTGTAAGTTGTTGTTTTAAGCAGCAAAACAATAAATGTATATTATAGCTGTAATTTGTTTCTCATACATTAGAATGCTATGTTAATAATATTTTTAAACACAAAAAATATCATGTATTTTATGCAGGATTTACAGCAAGTGTCTTTTGTTATAGTTTATATAACAAAATAACTTGACAGGCTTATTTACAACAATCATTTTATAGCATGTAAATCACTCTACATACCAAATACTACATTTTTACATTTTATTTATTGTCTGCTAGAAGTTTTGTCATTTAAAAAAAAAACATTTTCTTATTTTCTCTGTTCAAATGTGCTACCTTTCATTATTTTCAGGATGAAAACATCCATTGAATTAAACTGCTGTAAAAATGCATTAAATAAATATTTTTTTCAAATGTTTCTGCATAAATGTGTAAATCAACCTCAGTCCTGATCAAAACTACTAAATGTTTTTAGCTCATTAATAGGATTTTAACTCTTTATTTGCCAAGTTCACAAATGATGTCACTGATTTGGTGAAAAAACACACAAAATAACGTATTTTCAATATATGAACATGAAAGATGAGTAACAACACTACTTTTGATGCATTGTTAGTTTTTGTGCAGCTTAAGATTTTCATTCTTTCTGATTTACTGTTGGTGGCTGTTTTTCCCCATTGACTACCATTATAACCACATTTTATGATTGCAAAACCAAGACACCATATAATTATGCATATTAATTGTTGGTTTTCCCTGTCAGGAAGAGATTAAATTGGTAATTTTTACTGTTGTCATTAGTTGGCACAATTAACCGTTTAGATCAGGGGTGCTCAATCCTGTTCCTGGAGAGCCACCTTCCTGCAGATTTCAGTTGCTACCCATATCAAACACACCTGAACCAATTAATTAGGACCTGAACACCACGTGACAATTACAGGCAGGTGTGTTTGATATGGGTAGTAACTTAAATCTGCAGAAAGGCAGCTCTCCAGGAACAGGATTGAGCACCCCTGGTTTAGATAGATCCTTTAGAAATTTGCCTATTTGTGTATTGTTGAGTTTTGTTTTGTCACCTAAAATCATTCTGCAAGCTGAAAAACAAAAAGAATTATTACCAAATTAGGACTCAAAATCCCCAACAATACATAAACGTTATTCTTTTAAACATTTTAATAGGTACAGGTCAGAATATGTGAGTGGTTCTTTTTGACACATGATATTGTAACAGATTTGTGTGTATTAAGCATCAGTAAAGACAACATTAGCTCCTGTCAGCTTTAATTGTGGGGAAAACTGGGTAATTTTAATCTTTTTTCAGCTAATTTCATTGTCCGGATTTAAAACCATTGTTAGGGAGGGATTTAAATCGGTGACGTATCGCAAATCTGCTAGTGGAGAGATGACACTATTATTATTCATAGCTGAGTTTTCTTATCCTATGAGAAGACCCTGCTTCTTAATTATTATGGAGAGCACTGCTTTATGAAGGCAAGGCAGACCTGCCAAGCTGTGAGACCCAATGACTGGGTGAGACCGCGTTCGCACACGGCACACAGTATTTAGCCATACATGAAGGGGCGTATGTGTGTGTTTCCATGATCAACAGGGTTTGTTGCATGTTTTTCTCTGCAATGCTGTCAGGGTCGATACAGCAAAGCTGTTGGCTTGCAGTAAGCATTTTTGTCGGGAGAGCTAAACAGGAAATGGAGAACGGCTTCTTCTTTTATCAGTTGACTTTGCTACTATTCAGACACATCGCCTATATCTGTGCTGCTGTGTTCACCTATTTTTAAAATCTTTTGGATTACCGGCACATTCAGAGCCAGGGATTGAAATCCTCCTTATTTATAGTTCACACGACTATCTTTATAATGATATAACAAATTTTGGTTATGTGTATATGAAATTAGGAATAAAAAATGTAGGAGGACATTAAATTAGTTTATTTCTTTGCATTTTAACTTTGTAAACTGTAAAATCATGGCTTTCCTCACGGTTTTGTGTCTCATTTTATGAGCCAACAGACAACAGTTGTTCGCTCCCCTCTTTCTCACCTCTTCTGCTGGCCACGCCCATCATGAAGCATTTGTTTTTTAAATTATGAGGTAGACTTGAACCGAAAGCGGGAGGTTTCATGGCCCTTTAATGTGTATCTGTTATGTCTGTAATTTAAATTTTATGTGAATGCCAATATCGGTATGAATATTGTAGAGTTACACTACTGAGTGTCTCTAAATGACAGGATTTGAATCTTTTTTTAGTGGGCATTTCCATTAAAACTCATCCTCTGACAATTTTTTTAAATAGCCAACCGACTGTACAGATGTGAGAATGAAGCTCAGTATTAAATATGTTGCAGAACATTCCAAAAGGTTTACTGCAGATTAACAAGTATGAAATGTCTGTCTCTGACTGATATGTGCTTCGCTCTGCAG
Seq C2 exon
CCCATTTGGAAGGTTTAAAGTGAATAGTGAAGAGGAAGAAGAAGACGCCCTCACCTTATCCTCCGCTATGTGGTTCTCCTGGGGTGTACTTCTGAACTCCGGCATTGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000025728:ENSDART00000034849:13
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=0.000
Domain overlap (PFAM):
C1:
PF0049715=SBP_bac_3=FE(11.4=100),PF0006021=Lig_chan=PU(9.4=62.5)
A:
NA
C2:
PF0049715=SBP_bac_3=FE(11.1=100),PF0006021=Lig_chan=FE(14.3=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]