RnoINT0063549 @ rn6
Intron Retention
Gene
ENSRNOG00000000007 | Gad1
Description
glutamate decarboxylase 1 [Source:RGD Symbol;Acc:2652]
Coordinates
chr3:56861396-56863131:+
Coord C1 exon
chr3:56861396-56861552
Coord A exon
chr3:56861553-56862988
Coord C2 exon
chr3:56862989-56863131
Length
1436 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
GCTCTCCCTTCTGTTTGCAGCCC
3' ss Score
10.78
Exon sequences
Seq C1 exon
TTCTTCAGGCTCTCGCGTGCCGGACCAGGGATCCTGCAAGCAAGGAAGCAGCCCCGGGGTGACACCCAGCACGTACGTCTGTGGCAGAGCAAAGCCAAGCGGGGGACGCTTCGCGGAGGAGTCGCGGGAGGGTCCAGCTCCCTGTGGCTGAATCGAG
Seq A exon
GTAGGTAAATACCTACCGGATCGCCCGGACTTGCCAGAGCCCAGCCTTGGTTATTCAACTCGGTGCTCTCAGCCTGCGGCTTCTTGTCCAGCCCGTTACCCCACCCCACCGGCACGCGCCTGTCGCCCACCTTCCACAACCGAGTGCTTCCCTCCAGTCCTGTCGCAGCTGGGGTTTGGCGGCCCCCAGCCCTGTCCCTCCTCGCTCTTGCTTATCAATTTCATTCGAGAGGACACATAGGGGCTGAAGTGACACCAGAGCCATTTTTGCTTGCGCTTCGGGGATCGGAGCTCACGGCTCTCGGATACGCGCCTGGGTAGCAGCGGCAGAAGGTGCGAGGAGCGATAACCTGTTACTTCCCCAGCACCCGCGTTCCACTGCCGCCCGCCGAGCTGCGAGAGCGCGCGGGGGGGGGGGGACAGATGCTCTGCCCGAGGGACGACGCGCAAAAGGCGGCTGGTGGGCTGCGCTCTGCGGGGTCTTAGATTTACCCAGATTAGTGCTCTCCTCCCGCTCCTCTCATTCTTTCTCCCGCTCCTTCTCCCCATCTCTTCCTCCTTTTCCCTCTCGCCCTCTCCTCCCTCTCCCTCACTCTGTCCACGAACAAGCACCAAATAGGGGAGCCGCGCACTCTTATACCCGAGGTCTCTTGCGCCCTGGGCGCAAGTTGGCCACCGGGTGACGTTCTCCTTTTTACCCTCCGTCACCTTCTCTGGCTCAGTGAAACGAACTCTGGGGACTAGGTAGAGTAGAAGCAGTGAATCTGGGACGGAGCCTCGCCCTAGGGTTGAGAAAGCAAGAAACGAGGTGGGACTATAATCTGATTAGGAAGGCTCCAACACGCAGCCTTTTGGTTGTCTGGAGTGCAAGGTGACTGGTTCTTAGCGGGTCAAGTCCTGGGGTGGGGGGGCGGCTTTTTCCTCTCACCTTGTCTCACCAAAGTCCCTGTCCCCGGCGCAGTGAGCCTCCTTCTTTCCAAGGAATTAGCCAGACACAACAACGGGAACCAGACACCGAACCAGACGTGCCCGCCCCGCACGCCCTCCCCCCTCCCCTTCTGCCTGTCCGCCAGGCTGCTGGGAGCCCAATGGGGCTTGTCTCAGCTGGGCTGGAATTCGCTCGATGAGTGCTCCCTAGTGCTCCTAGTCCTATCCTTACCCCATCCCTCGCGTCCTGCACCCGCCTCCGGCGCCCCTTAGCTGTAAGCCTCACTCGGGGCACCCCGTTGCGCCTCTAGACTTGAGAGTCGCCCGGGGCTTCTGTGCCTGCGCCCCAGTCCGGGAGCTAGCGAGCGCCTCCCCACCCCCTCCCACCGACCGCGCACCAGGACCCAGCCAGCTCGCTGCCCTTGGTTTCCCTTCTGTCTCCGAGACTTCGGTGCCCCCGGCCGCAGGACCTAGAAGCTCTCTCGGCACAGCTCTCCCTTCTGTTTGCAG
Seq C2 exon
CCCGTTCCTGCGCCCAGACCGCGGGGGACACTTGAACAGTAGAGACCCCAAGACCACCGAGCTGATGGCATCTTCCACGCCTTCGCCTGCAACCTCCTCGAACGCGGGAGCGGATCCTAATACTACCAACCTGCGTCCTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000007:ENSRNOT00000000008:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.852
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTTCAGGCTCTCGCGT
R:
TGTAGGACGCAGGTTGGTAGT
Band lengths:
299-1735
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]