GgaINT0120282 @ galGal4
Intron Retention
Gene
ENSGALG00000013007 | CACNA2D4
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4 [Source:HGNC Symbol;Acc:HGNC:20202]
Coordinates
chr1:61196370-61199087:-
Coord C1 exon
chr1:61198954-61199087
Coord A exon
chr1:61196448-61198953
Coord C2 exon
chr1:61196370-61196447
Length
2506 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGG
5' ss Score
9.63
3' ss Seq
GGCTTGTTGTTCTCTGGCAGCTC
3' ss Score
7.78
Exon sequences
Seq C1 exon
GCTACTATACCCAGATCTCCACACTGGCGGACGTCCAGGAGAACGTGATGGAGTACCTGCATGTTCTCAGCCGTCCTATGGTCATCAACCATGACCACGACATTATATGGACTGAAGCCTACATGGACAGTGCG
Seq A exon
GTAAGGAATGACACCTCAAGTCTTTAGTCAGCAAACAGTAGGGCCTATGAGCCAATCTGGCAAAGGTGTTAAACCTTCAGCTAGTATGCTAGGCATATAATTTGTCCCCTTTCCCATCTAAATATCTTACAAGTATCAGAGCCTAAGTGAAGTCCTGAAATTTATGTAAAACCAGCAGCTGGTTGGCAGACAGAAGTTACAGGTGTCTGGCTGTGCTGAGGTAGGCAATATTTCTCTTCTGCTTGCTCCTGGAGCTGAGATGTATATATAGACTCAGGTCTGTATCTGCAGTGACCCAGGAGCCCAGGACTAATCACACAGACACAGCACGACTTAAGAAGTGTTCCTGTGAAAGAAGGCTACCTTCTAAAGGATTATTCACAGGAAAGACTATTTACAGCTCAAGATATGGGTCACAGAGATTTACTTCCTCTAGCCCAGTACCTAGGCACATACTACTGTTAGTCACACAAAGATACAGATCTCAGTTTGGGAGGCAGGCTCACTCTCTCATTCTTTGGGTTAGTAAGATGTAAGGTCACCCACTGTACTGGCCCTGTGCTCAGCCCGTGGGTGATGGGCACATCTCACTTCCTGGGAGGGCAACTAAGGACCTGAAAGTTGGGGCTTCCAACACCCCTTCCTTGCCTCAGAGGAAGACTTCAGAAACTGGGGCAACAGGCAGGTGCCATTACAATGTTATGTTGCCCATGCACCTTTGAAATCCAAAGAAGAGAAGGGAAAAACAAAGTTGATTATCACTGAAGGTATTTTCCCCTGCACTACCTCAAATAGAAGATGTTCCTCAGTCTTCATCTCCACTTCTATTTGCATTGCAGAAAGGGAAAGTTGCACTTCTTTTTGTGCTTTTCATGCTTCTAGAGAGATGTGGGTTTTTTTCATACACTGGCATCTTCACCAAAGAGAGATTTCTGCATAATTGTGACAACTAGAGCTGACCAGAGGGAAAATTCTCTAGAAACAGTGAGAATGTTCCCATATACTATTTCCTGGACTGCATTCCACTGTGGAACTGCACTTACTAGCCCAAGCGTGATCAGCAGCATCTTTAGGATGTCTGCCACAGCCCTGGAAGGAACTGGGGAGAACCCACAGTTTTTGGGATATGTTTGTTGCACTTTTGTTGCTGCATCTCTTTCCTCGCCTCTTGCCTTGGCTTGCAGTTCTTTTCCTCTGCTCCAAACTCTCCCATCTTTCACTCATTCCTCCATTTGTGTATTCATTCACCTGTTCATCCATGTCTCCCACTAGCTGCCACAGTCCGAGGAGGTAACTGCTGCCCTGTGTTTTGTGAGCATGCCGTGCCGTTGCCCTGTGCTGATTGGTGTGTCAGTGTGAGCACTCACAGCCACAGCTGGCCTCTACATCTGGGGGTGGGGGTCTGCAGCTCTGAGGAGCCCTCTGACACAAACAAGAGGGGAGGCAATGCTGGATGTACTGGAGAGCTGTGCTGTGGGTCCAGAGTAGATAAAGGTGTCTGTGTCGTGAGATAGCTTAGTTCACTGGATCTCTTCCACGTGTTTGATAAGTAAGTGCTGGGGACAGTAGTTTGTTGTGTATTAGCACAAGTGTTACTGTGGAGGGGAATTCTCTACGAAGAAGCATCCAGATGAGTAACTCAAGACACTAGGCTCAAATCTCCATCAAGCAACTGCATAGATTATTGGCTGGCTGCTGTATGGCTCCTAGCATGTACGCTAATGGAGACAGGAGGTCAGTTGTTGCCTTGCTACTAACTTGACCAAAGCAGAAATGGAAAGGAGATGCTACTGGCCTCAAGAGAATAGGTCCTTTTCACTGGTAGGCATGTTTGGGAGACTCTTGTGCATGTATCTTGCCTGTTTTACCTCCTTTCTTGTATGTTTTTAGAGCATCTGTCTTCTGCAGTAATGTGGCCCTCTGCTTCCCCATTACATGTGCACATCAACTGTGCAGACAGCTCACTATGTTGTCCTCTCTCTTTCCTATGCGTAGATGCCTGAGTGGCAAGTTTATATAAGCAAGCTGTGTGTGTATTTGTGCCTTTTAAACATTTGCCTGTGCTGTTTCTCATTCATGCTATTCATGTGTTTGCAGTGTAGATGATATTTGTGTTTTGCTCATATCTGTGTTGTTTTTCTACATTCTGTGCTCCATGTGTTGGTGGTTTTTACACTTGTTGCATAAGTACCTATGTCTATACATCCATTATGTGGCAGTTTTAAGTTGTGTCACCATTTCTACAGGTTTCTTCCTTCTCCTGCTTCAACACATTTCACTGGCTTTCAGCCCATTCTCATCACCCCACATGAGCAAGCATCCATCCTACGATCCTCTTGGATACAAAGCATTGAAAAATGCTGCCATCTGTTTTCAGAGGGGTGTGGGAGGCAAGGAGGTGTCTGATTGTACCCAACATCTGGGCTCCCTGGGATTTCCAGTGCCTTTTGCTTGGGTTATCTGCAGTACTGCGTCTGCTAACACATGGCTTGTTGTTCTCTGGCAG
Seq C2 exon
CTCTTTGCATCTCAGGCTCAAAGTCTGTTGCTCATGACAACAGTGGCTATGCCAGTCTTCAGCAAGAAGAATGAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013007:ENSGALT00000037501:13
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=PD(2.4=8.9),PF0274313=Cache_1=PU(8.5=17.8)
A:
NA
C2:
PF0274313=Cache_1=FE(26.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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]