BtaINT0030494 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021994 | CACNA2D4
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4 [Source:HGNC Symbol;Acc:HGNC:20202]
Coordinates
chr5:108783069-108784828:-
Coord C1 exon
chr5:108784750-108784828
Coord A exon
chr5:108783203-108784749
Coord C2 exon
chr5:108783069-108783202
Length
1547 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
GCCACCCTCTCCCCCACCAGGCT
3' ss Score
9.08
Exon sequences
Seq C1 exon
GTCCGGGTCTTCACCTACCTGATTGGGAGGGAAGTGAGTTTTGCTGACCGCTTGAAGTGGATCGCCTGCAACAACAAAG
Seq A exon
GTGGGTGATGCCATGTGAGCCAGAGTGTCTGGGGCCTCTCCTGAGCACAGGTGCTGAGCCAGGGCTCTGGTGCAGAACCCAAAGCGGAGGTGACTGCATCCACCCGCTTCCTCCTCAGACAATCAAGATGGGTGCCAATTGCTCCTTGCAGGGCTCTCACCCCACGACACACCCCCTAAGACGCACCCAGAAGTCAGGACTTCGGGTCTGCAGAAGGGGGGGCCGTCTCTTCAAATGAGGTTTTACCCAAACTGCCACACAGAAAACCAGGCAGATGGGGGACCGATACTTCAATGTCAGTGCTCTCTGGTGTCCGGCCTCCATTCCAGCTGCTGCAGATGAAGCCCATGGGCTCGGTTCTGCTCCAGACTCAGGGCACAGGCCATCGCTTTCTGTAGAACAAGGCTCTGTGTATAGCAGCCCTCATCTCTTTCTGGCAAGAACCCAATACTCAGGCTTCATGGTGTTGACTCAGGCCCCTCGACCCCAGCAGGATGTCCGAGCACCTGCTCTGGACGGTCCCAGCCCTGGGAAATGGACGTGGTCAGGACGGCAGGGATGGCCCTGACTCTGTCCGGAAGACAGGGAGGTGGGGCGGGGAGACACACACGTGAGCCGTCAGTGAGGGGATGATCTGAACTGAGCTGTGGGCAGAGGGCCACAGGCTGCCCAAAGTGTGGGTGAGGGGCAGCCCTCCTGCATCTGGGGGGTCAGGGCAGGCCTCCTGAAGGATGCGTGTCTGAGGTGAGACGTAAAGAAGTGGTAGGCGTGAGTCAGATGCGCAGAGCGAGGAAGGGCATCAGAGTGTCTGAGACAAGAGGCGTCCTGGAAGTAAAAGCGGCCCAGCTCCCCAGAGCTGGGGAGAGCGTCCTGTGGGTGATGGTGTGCAGACACGTGCTAGACCAGTCACAGCCTGTACGGCATTTGCCTCAGCTGTAGCCCCTTCCCCATGACTGACGGGGACTGTGGTTAGAGAAAGGTGGAGGGAGGCTCTCTGCAAATAGACTTGAGGGGTGGGATGAGGGGCAGGCGGTGAGGAGTTCCAATATAAAATCAAAAATTAAATTTTGAAAAATGCTATATACTTGAAACTAACACAGCCTATCCCTTTTCCAGTGGATCTTCCCGACCCAGGAATCAAACTGGGGTCTCCCACATTGCAGGCAGATTCTTTACCAACTGAGCTATCAGGGAAGACATAAATCAACTAGACTCCAATATAAAATAAAAAATTAAAAGACGCGGGACAGAGCTGTCTGCCATGGGGTTCACCCCTGCAGGACAGCCCTTCAGAGGGTGAGGGGCAGGCTTGTGCCCTGAGTTGAGGCCCTGCTGCTCCCAGGGCAACTCTAGATCTTGAGAGGGTGGGGGTTCTCCCAAGTCCAGGCAGGGCCAGGCCTTCATGTCCTGGCAGCACCACTGCCCCAGGAGAGGGCGGCCTTGGGAGAAGCAGCGCCCAGTGCCTGACCCAGGGCAGCTCCCAGCCAAGAGCTGTCAGCAGCTGGGGGCGTGCTCCTCGCGTCCACGGCCACCCTCTCCCCCACCAG
Seq C2 exon
GCTACTACACGCAGATCTCCACACTGGCGGATGCCCAGGAGAACGTGATGGAATACCTGCATGTGCTCAGCCGGCCCATGGTCATCAACCACGACCACGACATCACCTGGACCGAAGCCTACATAGATAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021994:ENSBTAT00000037708:12
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:
PF137681=VWA_3=FE(15.7=100)
A:
NA
C2:
PF137681=VWA_3=PD(2.4=8.9),PF0274313=Cache_1=PU(8.5=17.8)
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:
GTCCGGGTCTTCACCTACCTG
R:
TCTATGTAGGCTTCGGTCCAGG
Band lengths:
206-1753
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]