BtaINT0030523 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021994 | CACNA2D4
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4 [Source:HGNC Symbol;Acc:HGNC:20202]
Coordinates
chr5:108786573-108787391:-
Coord C1 exon
chr5:108787331-108787391
Coord A exon
chr5:108786724-108787330
Coord C2 exon
chr5:108786573-108786723
Length
607 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
TCCCTCCCCCTCTGCTACAGGTA
3' ss Score
10.66
Exon sequences
Seq C1 exon
GCATCAAGTGGACGCCGGATGAGAACGGAGTCATCACCTTCGACTGCCGGAACCGTGGCTG
Seq A exon
GTAAGCGAGCCCAGGGGCCCGGCCTCTGGGGCTGGTGTCTCTGCAGCCTCCGGGTTTTGCCTAGCTCTCGCCAAGGGCCTGTTCTGCACCCACCCCTGGGCCTCAGGTGTGCAGAACTAACCCAGCACAAGAGAAGAAGAGTGTTTGCATCACCCCACAGCTGCTCTGCTCCAGGACTGACCACACCTGTCCTGATGCCCGACACCTCCTTCCAGGGCCCTGAGCTGACTGCACACCCACCCTCTGCCAGATCCCCTCTCCCCCCGCACCCCTCCTCTGGCAGATCTATAACCAGGTCTGGGGGGTCCGGCTCCCTCCCTTCCCACTGTCAGATCCCCCTGGAACTCAGGCTGGCCTGAACCAAAGAGGACAAGGGTCACTACCGAGACCCGACCATCCCCACCTGACATGCTCGCTCAGTGGGCACGGTCCCAACCGTTGCCCCCGCAATGGCTGCCAAACAGCTGGGTGGTTTCGGACACAAGCAAGCCTGGGCGTTGACTTGAACTTTGAGCCAGAGTCTGAACAGAAACAAGAGAGACCCAGCCAACAGTGGTTCTGACTCCGGCTATCCCACCGCAGACCTGTCCCTCCCCCTCTGCTACAG
Seq C2 exon
GTACATACAAGCCGCCACCTCCCCGAAGGACATCGTGATCGTGGTGGACACAAGCGGCAGCATGAAGGGGCTGCGGATGACCATCGCCAAGCACACGGTCTCCACCATCCTGGACACGCTGGGGGAGAACGACTTCGTGAACATCATCGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021994:ENSBTAT00000037708:7
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCAAGTGGACGCCGGATG
R:
GCGATGATGTTCACGAAGTCG
Band lengths:
210-817
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]