BtaINT0030505 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021994 | CACNA2D4
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4 [Source:HGNC Symbol;Acc:HGNC:20202]
Coordinates
chr5:108770761-108772309:-
Coord C1 exon
chr5:108772212-108772309
Coord A exon
chr5:108770855-108772211
Coord C2 exon
chr5:108770761-108770854
Length
1357 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
GTGTCCGGACTTTGCCCCAGGTG
3' ss Score
7.85
Exon sequences
Seq C1 exon
GATCTACTGCATCACGGACATCGACCCAGAGCACCGCAAGCTGAGCCAGCTGGAGGCTGTGGTACGCTTCCTGACCCAGGAGGACCCCGCCCTGGAGT
Seq A exon
GTGAGTGTCCCTTGGCCTGAGCTCAGGACTCCGCGGGGACGGAGGGCTGGGTGGAGGCTTGAGTGCTGTGCTTGCAGAGCTCACAAATGGCTCAGGGAGACCAGAGAGACCCCCTGGAACTAGAGGACACAGCCAGCCCCCCCAGGCCACACCAGTGACGAGGGCTCTGAGACCTGTAAGGGCACGGGTGTGTCCCCGTGGCAGGGACTAGGGTCCCATTAAGCCTCTGTCCCCTGGGCACTGTTAAGGGCCCACAGTGATGGGCACTGGCCTGCCCATCAGGTTTGTCCGCGTCACCCAGTAGGGCCCCCCAACCCCGCTCCCCAGCCAGCAGGCAAGGTAAGGCTCCCTCAAGGCATCATCTCCTGCAGCCTGTGATCTGTGAGTGTTCCCTTAGCCGGGTCCAGGTAACCCCAAGTCCCTGCACGAATGCAGGACCACCCTCCACTGGGTCCCACTTCTTCCTCTTCAGAAGGAGGTGTGGATCATCCTGTCACATCAGTGTCCCCCCGAGAGAAGTCCCCACCTCCCATGCCATTCTGACAAGGCCTCATTCATTCATTCATTCGTTCATTCCACTCTCAAGTCTGTGCCAGACACGTTCTCCAGCCAGCCAGGCGGGGTGAGGGTGGTGGTGTTCATCAGTGAAGCTTCTGATGACTGCAGACCAGGCCGAGCGATCACAGAGTCTGCGGGTGGGGGGAGAAGCCAGGTGGTGGGACCAGCACTTGAGTGGATGTTGGCTAGTCCTTGCAGGCGTGATGAGGCCATGAGTAGGTATTGTGTGGGGAAGGCGGGCCCTCATCAGGGGCGTCACTCAAGCTGCGGGTAAAAGGACCCGCCTCATGGCAGTCCTCTGGGGCCATGAGAACTCGGGGTCGTAAAGGGGGCTGCCGGTCTCTGTGCAAGTGAAAGTGCCAGATTGCATGCCATCCACAGGGTGTCCATTGTGTGGATTTCACCGCAATAAACATCAATAAACGTTTTAGAGAAAGGAAGGGAGAGAAAGGGCCACCCAGGCAGACAGGGCGGAAGCATCAGACCAGGTATGCAGAGGCCCCAAGGCCAGTTTTTGGGGAGGGGAGGCAGGGGCAGCTGGCAGGCAAGCCTCCTGACTTCACGGAGCCTGAGAGCTGGCAAGGCCTGGGAATCGCTGAGTTCTGCCCACACACTGGGGCCGAGGACATGGCCTCCCGGCCTCCGGAGACGACCTCCTCCGGCAGAGAGCAGGGGCTCTGAGTGTTCCAGACCTTCTCTGGGGCACCTCTAGACCCTGAGGGTCAGGGCTCCTGGGCAGGGGGTGGGCGCCCACATCATCGCGGGGGAGTAAGCGGATGGTGTCCGGACTTTGCCCCAG
Seq C2 exon
GTGACGAGGAGCTGCTGCAGGAGGCGCTGTTTGACGCGGTGGTCACGGCCCCCATGGAGGCATACTGGACGGCACTGGCCCTCAACAGCTCCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021994:ENSBTAT00000037708:22
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTACTGCATCACGGACATCG
R:
TCGGAGCTGTTGAGGGCC
Band lengths:
190-1547
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]