GgaINT0120276 @ galGal3
Intron Retention
Gene
ENSGALG00000013007 | CACNA2D4
Description
NA
Coordinates
chr1:63204494-63205265:-
Coord C1 exon
chr1:63205205-63205265
Coord A exon
chr1:63204645-63205204
Coord C2 exon
chr1:63204494-63204644
Length
560 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
TACTCTTTTTTTTTATTGAGGTA
3' ss Score
-2.89
Exon sequences
Seq C1 exon
GAATAAAGTGGCTACCAGATGAGAATGGGGTCATCTCCTTCGACTGCAGGAACCGTGGCTG
Seq A exon
GTAAGCATTGTGGAGAAAGTTGGTTCTCCCCTCTCCCTCTTTTCAAGGTGACACCTGGGGAGCTGCTGACCAGCAGTCACTATGCCATGCTGTTTGTGCAGGAGAAGGGTACATAAATAGAGGCCTGACACCAGACAGTGCCAGCTTTCCACAGGGAATCTGACACGTGCCACATGGAAAGTACTGCATGTGCATCCTTCCTCTGTCCCATCCTTCTTAATCGTGCAGCTAGAGGAATGGGGCTGTTTACACAGAAAGGCAGGCATTGGCTCAGTTTGTCCAGCACAGCTGAATGGTATAGTAGCAGTTGTCACTCTTGGCTGAAACCTGGGCATATGTCTGCAGCTGTCCCAGCTCTTGTCCCTGTGTGAAGAGGCTGGAGTCAGTGGGAGGGGCAGGCGGGTAGCAAGAGCCCTGCTGGTGAAGAGTTGGACCCTGTGGGATAGCCATACTCACAAGTGCATGTTATGCTGTGGCTCACATCACCCAGATGCGTATGCCCAGAAATCTTCCACTCCACACTCTCACCATGGTTTCTTGTACTCTTTTTTTTTATTGAG
Seq C2 exon
GTACATCCAAGCAGCCACATCTCCCAAGGACATCGTCATCATTGTGGATGTCAGTGGAAGCATGAAGGGCCTGCGGATGACCATTGCCAAACACACCATTGTCACCATTCTAGATACTCTTGGGGAAAATGACTTTGTCAATATCATTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013007:ENSGALT00000037501:6
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=0.000
Domain overlap (PFAM):
C1:
PF083996=VWA_N=PD(2.6=14.3)
A:
NA
C2:
PF137681=VWA_3=PU(24.7=80.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATAAAGTGGCTACCAGATGAGA
R:
TGATATTGACAAAGTCATTTTCCCCA
Band lengths:
207-767
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]