BtaINT0030508 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021994 | CACNA2D4
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4 [Source:HGNC Symbol;Acc:HGNC:20202]
Coordinates
chr5:108761296-108764626:-
Coord C1 exon
chr5:108764499-108764626
Coord A exon
chr5:108761377-108764498
Coord C2 exon
chr5:108761296-108761376
Length
3122 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CTTGGCAATTTTTCCCCCAGAAA
3' ss Score
8.73
Exon sequences
Seq C1 exon
GAGGTTCCTGACTCCGGCGGACGAGGACAGCATGTTCACCCTGGACCACTTCCCTCTTTGGTACCGCCAGGCCGCAGAGCATCCTCCCGGCAGCATGGTCTTCAACCTCCGCTCGGCAGAAGGACCAG
Seq A exon
GTAAGCCATGTCCAGAGCTCCACGGCCAGGGCATCCCCCCTCCCCCCAGGGATACAAGACAACCATCCAGATCTCGGGGTCCCCTCCCCACTGGCCTCCACCCACACCCAGGGTGGGTCATTTCATTCCCTGGTCAGCAGTCAACAATGCCATTTAAAAGCTAGAACAAAGGAGAGAGGTTGACCCAAAAGTCAGAAAGGGCTGGATTCTAGCCCAGATTCTGCATAGGAGGCTATTGGGACAGTTGGCCTCTAAGAATTTTCTATTTCTAAACTTCTGAGTGTCTCTAACAGATGCTCATACCATGAAAGAAACAGACTTTATTCCACAGTGGGGACGAGAGGGCTGGGCTGTTGACGTCTCCCAGGAGGGCAACCCTGAGCCCCAGCCAGCCCCTCAGCCACTCCTGGTAATAACAGGGTGCCTCCCGGCTGCCAGGTCACTGAGGGCTGAAGGGCCTGAGGAGGGTGGTGAATGGGCCTCAGGCCCCAGCCAGCACAGGCCTGCTCGTCCAAGGGCTGCAGGGGTGGGTTCAGAGCTGCAGCCTCCAACCCCTAACCCAGCCCCCACTGCAAGAGATGGCCCAGAAAAGAAGCCAAGCAGCTTCAACAGAGCCCCAAGCAAGCCGCACAATGTTCAGGACAGACTGGACCCGGAAGCACAAAATCTCACTCTCTTGATTCCCACTTGAAGAGCCTATGGTCCAGAGAGGGTCCACGAGTCCCCTCTGGGGCTCTGACCCTGCACAGTGAGCAAGAAGGCCTGGGAGTATCCACGTCCTCCAGGCCGAGTGAGCCGAGGGGGCAGGAGTGGAGAAAAGGGGAGGAGGGCGGCTGGGAGTCAACTTGGAGTGGAGGCTTGTCCTCCCTCCAAGGTGCGTGTCCACCAGCACCACCACCACCACCCTCAGGCAGCCCAGCGAGAGCCGGCCCACTGAGCTGGGGCAGGGGAGGCCCAGGCCCCTCCTACGGCCGCCCTCCAGATGCCTTCCCGTCCATCTTCCCGTCGCGTTACTGTATGCTTATCCACACGAAGCTCATCTGGCGTGCACGGCCTCTTCTTACACAGGGAGAGTCTGAGGCTCACCAGGACCACACAGTTGGGGGGAGAGGGGCACAGGGCCAGGGTCTCACTGCACTTCACTGTGCGTAAGGCGGTGGTGGGGCAGGAGGCAGGCTGTGACCCCAGCGAGCACCCACGAGAGGCCCCTTCCCTCGTGGAGCCGAAGCCTCGGGGGCACCTCCTCCTTCCCATGGGTCTAGAGCGGGAGGTCCGTGAGGTCCTCAGAGGTTCTGGGGTGGCACCCTGTCCAACCCCCAAGGATGACAGGCTCCCTCCTGTCCATATTGTCACCAGAACGGGCCTCCTAGTAGCTTTGGGGGGCAGGGGACAGGAGGGTGGTGGGCGGAGCTGAGTGCACGGCGAGGAGGGAGAGTTGGGGACCAGCAAGGGGACCCTCATACATTCCCCACCCACTGCAGAGAGAGAAAACAACCTGTATAATGGGTGACCCCAAGAAGGCGAGCGGGGTTCAGCTGCAGGGTGAGGGGAGGCCTGCCTCCCCAGGCTGACTCTCAACCCTCTGCCTGACCCCAGGGTTAGCCCTGCCTGAGCTGAGCTATCTCTTGCAGTTGGTGCTAAGACTGCCAGCACAGAACAGGGTCTCACCAGAGCCCTGGCGGCTCAGGCCTGTGGCCTCCGTACCCACAGCCCCCTTTCTGGGGTCAGCCCCAGGCCCTGCCTCCACCCCCTGATAGCTGGCTCATGCAGCCAGGTGTCGGGCCGGGTAGCTGCCCAATGACACAGATGCTAAGATCCCCAACACCCCCAGAGACCGTGTCATCAGGGCCCCACCCATACGCGGGTGTCCCTTCCAAGCCCTTGGAACACACACAGGGAGTCTGTCCTGGAAGCAGCCTGCAGCCGGTGGAGCCTGCGGGGGTCATCCCATCAGTATCCTCCAGACATTTCTAGAAGGAAGTGGGGGAAGCCGGCTTTCGTTTTAGAGAAAAGGAGGGAGAGAAACGGCCACCCATGCAGAGACATGTGTTCCCGTGGGTCTTCATCATAGCGAATTCCTAGATCCCAGGACCACCTTCCGTAGATTCAGTTCCTAGAATCAGAGTTACTTTCTGTTTCTGTGAGATACTTGGTCCCAGCAAGGTGTCACGGGTGGTGCTGGCCTGGAAACAGCAAATAGGAGAAACCAGTGGTTGATTTAAGTTTCCTCATGGCTGACACTGGGAGTCTCAGGATCTATTTGTTTCAAGCAGCGTCTGATGAAAGACATTGTAACAGGAGAGCACGTGAGAAAACTGTACCTCTTTCTCAGGAATCTTAGTGAGAAACTTGACCCCGTGGACAAGAGCGCCCTGAAGAGCAGGTCCAGGGACGTGAAGTCCAGGAGCCACGGGTGCACTCGTCCACAGCCCTCAGCGTGGAAGCTCTGTGCGGATGCAGAGCTCGAGCTGGTGCTGCACCTGGCAGCCTGGCTCTCCTCAGAGCCGGGGAGCCACCTCCAGGCGGGCCCCGGAGCCTGGCCAAGTCCCCAGAGCACAGCTGCCAAGCGGGCAGTGACGTGGAGGCCCTCAGGGTTTATGGGGGCTCTGTGGATGTGTCAGACACCAGCCGGCCTTCTGGGCCCCATGCAGCCCTGGCATCTCGCTTCCCGAAGGGGCTGTCATTGTCACCTTGACTCACGTGACTGATGAAGGACAACCCAGGGTCAGCCAGCACCTTGTCCGAGAACACACCCCGTCTCCCACTCAATAGGGGGCTGAGATGCCACACAAGTCCCTGGGTGGGCTCCAGCAGGGTCCCTGGGCTCCAGCGGGCAGCTGCAGGCAGGCCAGTCCGCAGTCGGGGACCTGGTGATGCTACACCATCCAGAGGGGCAGGGACCACCTGGCAGCTTCAGAGCTGCACGGAGAGGTGGGCGTCACCCCGCCTTTAGGGCACATGTAGGAGACACTCGACAAAGACCAGAGGTGGGTGGTACCAGGCAGCCCCCTGGAAGCCCCCCACTCGCTCGGGGAACATGGTGTTTACCGTTGTCCCCAGCCCGCCCCACCTTCGGCTCCCCCTCAGGTGCTGAAAATGTGACTTGGCAATTTTTCCCCCAG
Seq C2 exon
AAAGTCCCAGCAAGCCTGCGGTGGTGACGGTGAGCACAGCCGTAGCCGTGAGCGTGGACAACAGAACGGCCATCGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021994:ENSBTAT00000037708:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.182 A=NA C2=0.143
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]