DreINT0075097 @ danRer10
Intron Retention
Gene
ENSDARG00000025728 | grin1b
Description
glutamate receptor, ionotropic, N-methyl D-aspartate 1b [Source:ZFIN;Acc:ZDB-GENE-051202-2]
Coordinates
chr5:28999003-29003544:-
Coord C1 exon
chr5:29003434-29003544
Coord A exon
chr5:28999831-29003433
Coord C2 exon
chr5:28999003-28999830
Length
3603 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
TGTTTCCTCCTCATCTATAGCCA
3' ss Score
7.52
Exon sequences
Seq C1 exon
GATAGGAAAAGTGGTAGAGCAGAGCCCGACCCCAAAAAGAAAGCCTCTTTTAGGTCCATCAGTACCAACCTGGCCTCCAACATCAAGAGACGTAGGTCGTCCAAAGACACG
Seq A exon
GTAAGGAGATTAAGAAAATGACGCCCTGCCTGTACTTCTATCTTCTCGCTCTCTTTCTCTTCCTCCTCCTCCTTCTCCTCAGCTTGCCCTGTTTCTTTCAATCTCTTCCTTTCTCCTGTCATCTCATCTCTCCTCTCCAAAACAAACGTCTCATCTCAGACTATCTTCACCCTCACACATGGAGTTACAGTCATGGCCACATGTCTGTCAGTCAGCCATCTATACTACATCCAGACATCTGTTGGGAAAGCCCAATCAGGGATCTAGCTGCCAGGGAAAGTGTGCAGAGGGAACCGAGGAGCAGATTTTATTTGGTGGTGGGGGGGGATTACTTTGGGTTTGACCTTGCAGGAGGGGGTGAGGTAGCTTCTCCTTCTTAGCGCCTGTGCTGGTCTTTCTCCCGCGCCTAACCTGGATGTGACTTTACGCTCTGTTTTCACCTTTTCTGTTCTCCTTTTTTTATGTGTACTCGTGTGTCTCTCCTCTCATCGCTCGGTCCTGTAACCGTTATTTCCATGTCGCTCATCCTCCTTTTTTATTGTCCCATTTTATGTGGTTGCTCTCACAAAGTCACCCTGTATGCCTCCCGCGATGCACGGTATCGCCATTAACAGCCAAACGAGACGAGCGACGCTAAAATAACCTGTGCTGTTCCCCCCCGGCAGGCCTGCACCGCCATTTATTTTTAACCATCCAATGTTTTCTTTGCAGTTTTATGAATACAAAAACCTACTTTTCATTTTCAGGAAACGCTGCCTGGATGGGTCGACGTTTACAATGTATTGAACTCTCAGAGCGAGAATCCCAAATGAGTTTGTTCACACAAACGCCTCCTCGCTGTGATTCCTGGGTCCCGCAGGTTTAATAAGACGTAGCTCTCAAACTAAACAGCTAGAAGCTCTGAGGATTCAATACAAACAAATGTGCGAGCACAAATGCAGACTACTCCATTGCATTGATTGTTTTATACTGAATTCAATTGCTCGCTGGGTATGGCAATGATTGACCTGGGGCTTTGTTGCACACACCTCCACTTGCAAAGTTATTCTGATTGGCAGTTCATTTGCTCCACAGTTTACAGAGAAACATTAAAACCCACATAGGTCACAGTTGATTTCTTCTTCAGTTGGTCACAAAGGTGAGGGTGCTCACAAAACTTGATATGATATACATGATGAATTTAGAATAGGCCCAGATTAATGTTACTTTTGGCTAAAGATACAAAGTCAAGTAGCTACACAGTGACCAAATGTCTTTTTGAACTGATGTTTACCCATCACAGTCCTAATCATCCTTTTCTTTTTCTATCAGTGTTTTTTATAAATGGATTTGAATGGCGTTTTAAATGTCGGTGTCCACACCACATGCCACACTGCCTCTCTCTTCCTCTACCAGCATGAACCTTCTGGTTGTTGTAGAATAGAGCTCTTATACTGTTCCCCTGTTTGTAGACAGGGGGCGTTGTGGTTATGACTCACAATTGATTCAGAACACCGTAAAAACATTGTTATGAGTGAGAGAATCAAAGCACCCACTGAAGCCACTTTATTTTGAGTATTTATTCAAATCTATTTTCCGTAAACATGATTTTATTTTTAATGACTTAAAGGAACAATTCACGCAAAAATTGGAAATCTGTCATTATTTTCTCTCAATCATTGTGATTTGAAGCAGGCCTATAGCCAGCCCAGTGAAAGGTATGGTTCTTTTTTTCTCAAAAAGTGGACCTTTTGCAGTTATTTGACTCATTTTCTATTTAAAATGAATAAGATTGAAAATCTTGTTCATATGAAAAAGATTTAAATGCTGAAAAAAATGAAGTACTGCTTTTTAGTTTTAAACACTATTTTTAGCTGGATTAGCTTGTCACATGGTCATCATAACCACACTTTTTGATGTACCAAAAAGATTTATAATAAAGAAATATATTAAAAATTAACATCATATTTCATATATTATATTACATCATATTTCATATATTATATTACATCATATTTCATTAGAAAAAAAACAGGAATCTGTTTTAAATTAAAAACTGTAGTAAATTGTCATTTGTTAGGCAAATAACAAATAGAGCAGTATATTTAACTTTCCTCAATCAGAATTTGGCTTTGAATAGCAAGAAAAAGCATAATAATAACATAATTATTAATTATGTAGAACTTTACGATTTTTCTAGCCTCTCCTGAAAATGTTTGAAAAGTCAAGGATAACAATAGTAAAATTAATATTCATATTCAAATTTTAATAAAGACCACTTTTGGTGCTTCACACCTGTTTATTGGTTTTATTTTTGTTTTAAGAACATGCTCCAAAATTTAGAATAAAAGTTACTTGTAAAATTTTTTTTTTTTTTTTTTTTTTTTTTATATTTAACCACAATACAAAAATCAGTAGTGAAAGATAACCTCACGTACATCAGATTCAAATGCTTACTTGCACAGCTGGATGTTGGACTCATGAAAAATAAGTGTTTCCATTGGACAAAACTGATTAAATCACACCAAAGCGACAAAGATTAAACTTGGTCTTAGACCCTTTTTTGATGTTTTTTTTTCTTTTACAAGTTTTGACAGCATAGTAGTCAAAACAGGACAAATAAGCTCATGTATTGGACAAATTTTAAACTTTAGTCAGTGAGAGGTGGGTCTTTCGAACCACCCAAACGCCCCTGGCTACGGCCCTGTAAAGACCTGTGTGATCTTTTTAATACTGTGAAATCTTTTGAAGAACATTTAGCCAACAGTAGTAAATCCTCATTTTGCTGCAAAATTTAAAGTATGAGTTAAATAATTGTCAGTCAGCATAACAAATATATTTGTCTGAAAATAACATTAATTTTCAATGACAATAGGTCTTATTTTGGTGCTTTCTTTAATACATAAAAAAATGGGTGAAATAATCCAATATATTGTCTGTGTTGCAGTAAATCATACAGGTTTACGATCAAGGTTAGAGCTAGTAAATGATTATCTCTAGAGGAACAATATTCTTTTATGAAATCTAGCCCTTTCTACTGCTAATATTTCCCCATGTGTGGAGTCAAAATAAACTTTCAATACAATAATTCTACAGAGACATCGAGAGTCAAATCTGTATCAGGCTGGAATGAACTGCACCTTGTGCTGCATATCAGATCCGACCGTCATATTTCATTAGGACAGTTACCATGGTGACAATACTTCTAGGTCAGGTAAATTATTAGCCGTAGGCCAGGAGACGGAGCGCTCTCGTTTGTGCCATTACAGCTTTCCTGCGCGGACATTTCCGCATTGATATATGATATCGGTTTAAGCAAGCATATTCATTTCGGACTACAAGCGTGAGCAATGATCCTTTAAGAAAGCAAATTGTGCAGTAATGAATCCATGACCTCATTCACTCTATTTATCTTACAGTCCAACGAGGCCTGTCTGTTTTTAAAATGCTAGCAAATTATTCAGCATGACACATAAACGTGGCTCAAAGTGGGTGGGGAGATTGTCTCCATCATAAGAACGTCAGCCCGGTTACGAGAGGTACAGTGCATACTGTATGCAGGATTATGCCAAAGTATATATGCTCTTACTTTTCCTCCTTTTTCTGTTTCCTCCTCATCTATAG
Seq C2 exon
CCATATCCCACGGACATTACGGGCCAGCTCAACCTGTCAGACCCCTCTGTGAGCACAGTGGTGTGAAAGTGAAGAGAGAAAGAGAATTTGACATGCAGAAAGAGATAGAGAGAGAAAGCAGAAGGCGGTGGGCTATGAAACACCTTCAACACTGTCATTTGAGCAAAATCCACCCTGTCTGAGCTTATGCACACTGGATGTGAAACTCCTATGGACACACTGTGCCAAATTCAACCACACTGGAGCAAATCCACACTGCCACACAGTTCACACCAGACCAACACACATGCATACACACACATACACACAAAGTGCTTCACTTTTTACAATCTTTTGCACATATCGAAAAGAGTTTTTGTGAAATATGTAAATATGCACTTAGACTTGTGTTTCACCACATTAGGTCGACATTCACCAGAGAAGATAATACCGAATTAGTTTTTCACTTTTATGATACGGACATTGTTGCAGTACATATGTGATACACGTCTTTCTACCTCCACCTAAGATATATGTAGCTTATCTCAACACTTTGGCAGTGTTTTGATGTTTTCTCAACTGAAAAGAGCAAACACCGAACATATCTTTGGATTTGATCAAATAGGTTATGGTAGAAAATGTGGTACTATAAATAATAAGACTGTCGTGAAGGGCACATTTTGATCATCATTGCACTTTGGTGTATTATTCCTCATTTTGACTCTCTCTCTTCACTGCCATTTCCTGAAATGGTCCAGGTTGCTTTTTAGACACATACTGTGGATTTTTAATTCTCTGGTTATTTATTCAGTTGTGTTTTTTATTATCTTTTGTAAAAAAAAAAAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000025728:ENSDART00000034849:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.703 A=NA C2=0.429
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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]