GgaINT0021035 @ galGal3
Intron Retention
Gene
ENSGALG00000005400 | CACNA2D3
Description
NA
Coordinates
chr12:7958934-7959923:+
Coord C1 exon
chr12:7958934-7959039
Coord A exon
chr12:7959040-7959830
Coord C2 exon
chr12:7959831-7959923
Length
791 bp
Sequences
Splice sites
5' ss Seq
GAAATAAGA
5' ss Score
-1.76
3' ss Seq
TCAAAAGATCTCTCCTTAACTTC
3' ss Score
-6.18
Exon sequences
Seq C1 exon
GTCCTTTGTAATCCAGCAAATCCCAAGCAGCAATCTCTTTATGGTGGTAGTAGATAATGAATGCTTCTGTGATTCTGTCCCACCCATTACCATGGCACCTATAGAA
Seq A exon
ATAAGATATATCCTTTTATTTGCATAGTTGTCAAGAAGAGATTCAAGATGTAAACACTGAAAATTTTCTTCTTACGTAAAGTGACTTAAGAACTTCAAAGAATGCATCACAGCTGGGGCTGGTTGAAATTAAGCCAGCTGAGAATGCATTCTTACTTTCAAGGAGAATTCACATGTTTAGGAATTTAGGACAGCCAATAAAATTTAAGCAAACACACTTACATGCATTTTTAAGTATCGTAAGGTCACAGTCTCTATTTTTAGGTAGTGGGACTTCTTTCACGTTATGAGCTAAGTATGTAAGTTCCTTCTGAGGGTAGAAATCCTGATATTGGAACTTCTGAAATTCCTGATTGTGCGGCCATTTTAAGACTTATTGGGAGTATTGAAACCATTTCAGAAGCCTGCTTTTCAAACATATAAAAATATAACAATCTAAATATAGCAATTGATTTTTAGCTGTCATACTTTTTATTCTGTGCTGTTTTATATACCTTCAGGGTTTGTTTTCTCTAATGAGTTGGAATTTATCAAAAGCGGTGTGCTTTTATTGCAGATGTTATTTAAAAACAGGTTAATAGTGTTAGTGCAAATGATACTGTCTGAACAATGGATCACTGAGGTGAAAGCAGTAGAATTACGTTATTATTCTTGTGTTGACCACACACACAACCTCAGATCTTTGAATGAAAGGAAAAAGTGACGAGTTGAAAGTTTTTCACTGCATGCATTTCAAAACACTTAACGAACTCAGGATATTTAAATGCGATGTTCAAAAGATCTCTCCTTAAC
Seq C2 exon
TTCGTGGTACATAATGAATCCCTTAAATGTGAACGTTTAAAATCTCAGAAGATAAGAAGACGCCCAGAATCTTGCCATGGATTTCACCCTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005400:ENSGALT00000036263:32
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=0.032
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTTTGTAATCCAGCAAATCCCA
R:
TTCAGGGTGAAATCCATGGCA
Band lengths:
198-989
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]