BtaINT0069138 @ bosTau6
Intron Retention
Gene
ENSBTAG00000047202 | GRIN1
Description
glutamate receptor, ionotropic, N-methyl D-aspartate 1 [Source:HGNC Symbol;Acc:HGNC:4584]
Coordinates
chr11:105929722-105932040:-
Coord C1 exon
chr11:105931957-105932040
Coord A exon
chr11:105929864-105931956
Coord C2 exon
chr11:105929722-105929863
Length
2093 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
CTGTGTCCCCGCGTCCCCAGATC
3' ss Score
10.8
Exon sequences
Seq C1 exon
GTCATTCCCAATGACAGGAAGATCATCTGGCCGGGTGGAGAGACTGAGAAACCTCGCGGCTATCAGATGTCCACCAGGTTGAAG
Seq A exon
GTGGGGGCCCCGCCTCCCTGCCCCAGTCTCTGTACGCCGTAGCCTCCATCCTGTGCCGCGGGTGCAGAGGGGACAGTGAGGGCCCTGAAAGTGACTACAGGTCCTGGGACCAGCCCAGCACCCACAGCCACTGCACACACCTGGCGCGGCGGAGGGGCAGGGAGAGGGAGTGGGTGCAGGAGAGGAAGCCCAGCTCCCCGGCCCCTCCTGACCCCATCCCGCTTAAGCCTGGGACAGTCATGTGGACCTGGGCTCCCCTGGGGACGAGGGACAGACGGTTGGTCTTTCTGTGGACTTCAGTACTCTGAGTGCTGAGCCCCAGTCCTGGAGATGATGCCCCCACACTCTTCGGCACTCCTCCAGGTGGTCCCAGCCCACTGCCCACCCTTGGCCTTCCTGGCCTCCTGCTGGGACTGGCTCAGACTGTCCTTCTGAGCCGGGTCTCCCCGAGCTGGCCAGCCCCTCTGTGACTCACTGGGCCTCTGGGAGCCCCTCCCCTGGGACCTCATCTCTCACAGCTTCTCTTCCTCATCCCGACTCTGCTACACTCCTTCAGGCTCATCCCAGGATGCCTCCCAAGAGTCCCTCCCACACTGACCCACACCAGCATCAGGCTGGTACCTGAGCTCACCAAAGGCAAAGAGCCTCACACCGTCCTTCTTGTGGTGTCCCCAGGTCCTCTCTTGACCTCCTCTGCTTTCTGAGCTACCCCACCCCCGTGGCCTCTCACCTGGACCTCTTTGTCTGCACTTGCCTACAGGGCACCAACCCTCTCTATGGGCAGAAGGGAGTTCCCCCAAGCCAACGCTCAGGAAAGACGCTTTGTGTTGAAAAGTCTGAGTGTAAAACAGACAAAACAGATGGCCAAGATGGTCCCCTATAGGCTTTGAGAGCCAGAAGGCCTTTTAGAACTTTTTGTGTGTGTTCTTATTTTTTTGACACAAAATTGTTTATTTTCAAATTAGTTCTCATTGGAGGATAGTTGATTTACAGTGTTTGTTTCTTCTGTACAGCAAAGTTACTCAATTATACACGCACATATACCCACTCTTTTTAGGTTCTATCCCCATATGGGTCACTGAGCGCACTTCCCTGTGCTATGCAGTAGATCGCATCAGTTATCTATTTTACGTGTAGTAGTGTATGTATATGTCAATTCCAATCTCCTGGTTTATCCCTTCTCTGTCTCACTGATTTTTTAAAAGCATGAGCATATTACTTGTATAATAGAAATGGTGATGAAAGTTTTAAAGGCAAATAAGCCCCTTCAGGGGCTCCCAATCCCCTGCCCTTGGGGGAGCTGGTCACCCTGCAGGAGAAGGGGCCTCTCTCACCAACCCCATTCACCTCGTAGTCTCAACCCCAGCACTATGTCCCCTGGGACCTCTCATCCCGTGCAGTGATTGGTTCAGCTCCGCTGCCTATGTCTATCCTGCCTACTCCCAGCCTTCAGAGCTCTGAAGGACTGAGAGGAGAGAGTGCCCCCCGTGAGCCCCAAGGAGCCCCTGGATTGAAGAGGCCACAGCAGAAGGGCAGCCTCACTGGGGGAGAGGCAGGCAGGCAGGATAGATGATCAGACAACGACTCCCTGTGGGTGGAGGCTGAGGCCAGGAGAAGCTGGAAGAGCCAACAAGGGCAGTCCCTGCATGTCCCTAGTCCTGGGCAGGCTCTGAGTGAACATGCCCCTGTCTTCATGGCAGTGGGTGGGGGCAGGGGGTAGGCTTTGGGCTGGGACAGGGAGGTCCTCAGCCTCAAGAAGTCAGAGAAGGGGCTCAGGGCAGACTGGACGTCTGGCAGGCTCCACTAATCAAGGGACTGTTCCGTAGGCCAGGACCTGAAGGAAAATTGGCCGAGAGAAGGCACAGTGTTCCAGGAGGCCAGGCACCCTCTGCACACTGGGCGAAGTGTTAGGTTCTGGCGCCCCTCCTGGGGGCAGCAGGCTGATCGCTGCCAGAGGGGGCCGTAGAGGGTGGTGCGGGAAATGTCAGGGATCTGGGGAGGGGGGCTCCAGGGAAGTCTGTGTGCTGAGAAGAGGGCAGCGCCCAGGACAGCCCAGGGCTGGTGGTCCAGGCCCTGTGTCCCCGCGTCCCCAG
Seq C2 exon
ATCGTGACGATCCACCAGGAGCCCTTCGTGTATGTCAAGCCTACGCTGAGCGACGGCACGTGCAAGGAGGAGTTCACCGTCAACGGGGACCCGGTCAAGAAGGTGATCTGCACCGGGCCCAATGACACGTCGCCGGGCAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047202:ENSBTAT00000065439:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.214 A=NA C2=0.250
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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]
SPECIAL DATASETS
- Pre-implantation embryo development