GgaINT0120305 @ galGal3
Intron Retention
Gene
ENSGALG00000013007 | CACNA2D4
Description
NA
Coordinates
chr1:63108245-63108845:-
Coord C1 exon
chr1:63108735-63108845
Coord A exon
chr1:63108336-63108734
Coord C2 exon
chr1:63108245-63108335
Length
399 bp
Sequences
Splice sites
5' ss Seq
CAAATATAT
5' ss Score
-6.21
3' ss Seq
CCTGCCTGTGTCCTTAACAGCCC
3' ss Score
10.7
Exon sequences
Seq C1 exon
GATGTTTGTGGCCCAGCAGATTGCCAGCAGCAACCTGCTGCTTCTTGTCACAGATGCCACCTGCGACTGCAGCATCTTCCCACCTGTCCTGCTGGATGCGAAGGAAGTCAA
Seq A exon
ATATATCCTTCTGCTGCGTGCCTTTGGGCTCAGGGCTGATGAGGGTGGAAAACCTGCTCCCCTGGCAGTTCCCATGGGGGAAGGTGTGGAGGGCACAGCCTGCCCGTGGGATAGCAGGAGGCAGGGAAACGGAGCAGCATGCCGGAGAAGAGGTAAACAGTGCTGCTGCTGGGCCCTTTGCATGCATTTCTGCCATCCCCAGCCATTGGTCATTCCTTGCCTTCTTCTAGCTCCTGCAGGCCTCCCAGCCCACACTCCTGCAACATGCGGCTGGGAGGCTGCTGCACTTCCCTGGCCTACCCTGCTCTGACCCGAGGCCGTGCAGAAGCACCCATAGGTTTGCACCCCGTTGCTGTGTGCTGCAATTGCGCCTCGTCTCCCTGCCTGTGTCCTTAACAG
Seq C2 exon
CCCTGCACACAACGCATCGGTGAAGTGTGACCGCATGCGCTCCCAGAAGCTGAGGCGGCGACCAGACACGTGCCACGCATTTCACCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013007:ENSGALT00000037501:35
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=0.242
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTTTGTGGCCCAGCAGATT
R:
CTCGGGGTGAAATGCGTGG
Band lengths:
201-600
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]