GgaINT0021024 @ galGal3
Intron Retention
Gene
ENSGALG00000005400 | CACNA2D3
Description
NA
Coordinates
chr12:7878166-7879654:+
Coord C1 exon
chr12:7878166-7878261
Coord A exon
chr12:7878262-7879532
Coord C2 exon
chr12:7879533-7879654
Length
1271 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
TTTCTCTCTTCTTTCTCAAGAGA
3' ss Score
7.22
Exon sequences
Seq C1 exon
AAATTCTGACAAGGGAGTTGAAGTTGCCTTCCTTGGAACACGGACCGGATTATCTCGTATCAACCTGTTTGTGGGTCCAGAACAGCTTACTAATCA
Seq A exon
GTAAGTAACAAACCTGTGCTTGGCAACTGTGTGTGAAATCAAGAAAAATTGTTTATTTTTAGAAAGCATGCCTACTGTCGCTTCCAGAGTGTTGCATTTGTGCACTGAAATACATAGGACAAATTAGAAAGATTGTATAGAATTCTTTCTTCAGTTGGAACGTCTGGAACAATGAGCTGTTGTATACCTACAGCCATAGATTTAGTTTTCCCTCATTTTCAAGAGTTAGCTTTATACCTTTACTATTCAGAAGGGAGTGCAAAATATGCTACATCTCTAGGAAAAAAAAAAAATATATATATATATTTAATATCTCCTCTGAAAAAATATTATAGACTTTTTAGAGTTTGTATCTTATTGCTGGGAATTCTTCTTTTAAATTGAAACAAAGCTAACAGAAGCGGACTAGGTGAAAGGATTATCAGGAGATCTCATCATTCAAAAGATTCCTTTTGTTTGGGTTTTGTTTTTCTTTGTTTGTTTTTGCATTTTTGAAGATGTGATGTACTGCAGGTACAGGTTTCTTAAAATGGAGAGCCATAAAATAGGGTCCGATAATTAATGACTTTTTTAGTCAGCACTTTAGTAATGTCAGGCAAATATAGGTATTATACATGTGAAAAAAAGCCTGCACTTTATGATAAATTAGGTTTATTGGATATAAAAATTGTATGATGCCTATCTGACCACAAACTATTGTAGTGTAAGTAGCCCAACAGATGAGATCAATAGCACTGCAATTTCTTACTGTCAGACAGCAAACCAGAACAACAGCATGGAGACCATACTTGCTATTTATTCTCAGAAAAAATTTCCACATTGATGAATAAAGTCTGCAGTTTTCCACTACCTCTCCTTAGCTATAATTTGGAAAGTAGGCTGATCATTAGTTTGCTAGGGTTTTTTTTTTTTCTTTCTTAAAAATAGATACCAATGGCAGCAAACTATCAAACCTTCAGTGACTTTTGCATTAAACGGTTCTTGTGTTCTCCTGTTAAATGATTTTGAATGAGCATTTTTATTTTATATCAGTAGAGATGTATTTAGTGCTACTTAGTTTATGAGCTTTTCCAATTGCAAATCTGTTACAAATGAGTACTAGGGGCTTAAGTTAGCCCTCTCTTGTACAAATGATATTAGAATAACTGTCCAAAGTCATTTTATTTCCTAAAACATTGAGTTTTGTCTTTTTTTTCTCTTGTCTTTCAAATCTAGACATTACTGTGTGACATACAACAAACAAGTATTTTCTTTCTCTCTTCTTTCTCAAG
Seq C2 exon
AGATTTCCTGACAGCTGAAGACAAGGAAAACATTTTTAATGCTGATCATTTTCCACTCTGGTATAGAAGAGCTGCTGAGCAAATACCCGGGAGCTTTGTCTATTCAATTCCATTTAGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005400:ENSGALT00000036263:21
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:
NO
A:
NA
C2:
NO
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:
TCTGACAAGGGAGTTGAAGTTGC
R:
AATGGAATTGAATAGACAAAGCTCCC
Band lengths:
206-1477
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]