GgaINT0045676 @ galGal4
Intron Retention
Gene
ENSGALG00000012511 | CACNB4
Description
voltage-dependent L-type calcium channel subunit beta-4 isoform c [Source:RefSeq peptide;Acc:NP_989675]
Coordinates
chr7:34850010-34852678:-
Coord C1 exon
chr7:34852556-34852678
Coord A exon
chr7:34850141-34852555
Coord C2 exon
chr7:34850010-34850140
Length
2415 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
GAAACCTTTCTGTGTTCCAGAAA
3' ss Score
8.06
Exon sequences
Seq C1 exon
TCCAAACCAGTAGCGTTTGCTGTTAAGACCAATGTGAGTTACTGTGGAGCTCTGGATGAAGATGTCCCTGTCCCAAGCACTGCCATCTCTTTTGATGCGAAGGACTTCCTACACATTAAAGAG
Seq A exon
GTAAAAACATGTAGCAGTTATTCCCTTTAAGAAGCCGGGGGCTGCAGTTGGAGCAATCATGTCTGAACTGAACCGGAGAAAACTGAAGACCAAGAACTGAGCAGCAGCAGGAGAGTACAGCACGCAGATGGGATAGTGGTGCTGTGTGACCCTTCATCCTTTCCACAGTTGAAATCAAGTTTGTGATGGATCTGATGTAACAGAAAGGGGCTCTGTTCATCAGGGAGTTTAGTAGCAGCAGTTTACACCTGGTCTTTGTAAAGCACTTGGGTAGGCCTGTAAGGGAATGAGGCAGAATAACACAAGCATAAAACAAAACGCTGACGAGGCTGCAGGACAAAAATATATAAAAATAAGGAAAAAGGAATGGGAATAAACAAGCCCTGAATATGGCTTTTGTAGAGAAAAAGACTCTTGTTGCACGTTGAGCATGTTTTCTGCAATTAGTTATCTGAAGTGAGCCCTTCAAATCTGCATCAACTCCCGTTGTTCTGTAGATTTGTACTTAGACTTGCAGCTTGCAAATATGTTTTTTTATCTCTGCATTCTGTGTGTTTATTTTTGGGTGTTCGGTACTAATTTTTCCCTTTCTTTGAACGTTAGCCCATCATTGCTTCAAAGCTCTCATCTCCCCGAGACTGAGCATGTTTGGGAGGGAAACACCTGCTGCTTCCTCTCTGGAGACAGAGATTGGTGGTAGAATGGGGGAGTTGTGCTTGAAGCTCTTTCTCCCTGGACACAGGAGGGGCAGTTGATTTGCATGTTCCCTTTTCTGAGTTTGCTGGAAACAGATGGAAGGTTGATTTTTTTTTTTTTCAAACATTATTTTATTTTATTTTTAGTTGGTTTTGTTGTATTGTTTAGGTTTTCTTTAATACATTGCTGTGGAGATGTCCTTAAGCCCATGTTGAGGAAGCAGAGCACTGTGAAGTCTGAACCTGCCTCTCTCTGTGTGGAGCTGCCTTTCCCCTGCGCTGAGTTCCCAGGAATGTGCTCCTTTCTGTCTGGCACCACACCTGAGCTCCCCGTCATGTACCCACCCTGAAACCATCTCCCCATCAGGAAAGTGTCCTTTGCTGCACTCAGAGCAGAGCTGCCTGCAAACAGCTGCACCCGTTACAGCAGAGATCACTCCTCAGCTGCCTTCCCTGCCATGTTCCCTTTCACACCAGGAGCATACCGTATCTGGTGTGCTGTCTTTCTAGTTTGCACATTGCAGCTGTTCAGGTAGCTCTGTGCATCAGCATTAGCACAGTATTTGCTCTTGATTTCTCAGCATGTGGCTGCATGCATTGTCTGGCCACAAATGTGCTAAGCTCCTGTTGGTGCTGCCCTGTACATTGTTCCTGGGCAGTGTCACAAGTCCATGTCTTGGCTTTCTGTGAGTGTTCCTCTGAGATCCAAATGGCCAGGATAACACCCCCACCGCACATAAACCATCTGGCTTACAGGTGTTCACCTGCTCTGCTAGGGATTCAGCATTTCTTTGTTAATGCTGAAGCCTTCAGCCTGCCTGAAGCTGTAACTCAGTACAATTTGGGCAGCGGTTCGTGGAAAAAGGCTTTGCAGAATTTGTTCTTCAGTGATCTGATGGGTTTGCTTGGCCAGCAATAGCCATGATTTAGATTAGATCCAGATTTTAGAATAACACCAGGCCAGGTAGAAGTCAGGTCACCCTGCTGACAAGATGAAACATCAGCAGTAACTGATGAGTTGCTGTATTGAGAGTGTGTCCTGTATGTCTCCTACCTCTCCTACCAGACTATATGTTATGTGCTTATTTCAGAGAAGTGCAACAGTTACTGACAATATGGAAGGAATTATGGGCATGGCAACCAGTAGGAATGAACTGTAGTCCTCCCACATGCTAAATGCAGAGAATAGCTTATGGGAGGTAATGACCTAATGCAAATTGCCCTGCTTCCCTTACTGCATTGTTGTCAGTTGCATTGTTCAGCTATTCTCAGCATAGCACTGATTCTGACCTCTTGTCTTAGAGGTGTCACTCAGAACTCCATGTCCTGGTAGTAGAAGGAAAGTTCCCATGTTCGAGCCATACATTCAGAACCAAAATCAAGTAGTTAATCATCAGAGGGCTCTGATTGGAGAATCATGCCATCACAGAGAGGTGTGGGTTAGAAGGGACCTTAAAGCCCATCCAGTTTCATCCCCCTGCCATGTGCAGGGATGCCTCCCACTGCACCGGGCTGTCCAGGGCCCCCTCCAGCCTGGTTTAAACCCGTTCATCAGAAATAGCTCATGCTCCTTACATCACCATCACCCTCAGCCCCAAAGTTATGATATCAGAGAAGTCACAGCAGGTTGTTTTGGTGCTGGTATGGAGTTAAGGATTGCAGATAAGATAGTAGGGAGCTCAGGACGTGAAGCAAGGCCAGAAACCTTTCTGTGTTCCAG
Seq C2 exon
AAATACAATAATGACTGGTGGATAGGGAGACTGGTGAAGGAGGGCTGCGAAATTGGTTTCATTCCGAGCCCGCTTAGACTGGAGAATATCCGCATCCAGCAGGAGCAGAAGAGAGGACGTTTCCATGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012511:ENSGALT00000020437:2
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=0.239
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PD(2.4=2.4),PF0001823=SH3_1=PU(44.2=46.3)
A:
NA
C2:
PF0001823=SH3_1=PD(51.2=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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]