RnoINT0028258 @ rn6
Intron Retention
Gene
ENSRNOG00000007666 | Cacnb4
Description
calcium voltage-gated channel auxiliary subunit beta 4 [Source:RGD Symbol;Acc:68385]
Coordinates
chr3:37997437-38000272:-
Coord C1 exon
chr3:38000153-38000272
Coord A exon
chr3:37997560-38000152
Coord C2 exon
chr3:37997437-37997559
Length
2593 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACT
5' ss Score
6.64
3' ss Seq
TTCTGCACTTCTGTCTCCAGTCC
3' ss Score
8.5
Exon sequences
Seq C1 exon
GGGTCAGCAGATTCCTATACAAGCAGGCCATCGGACTCCGATGTCTCTTTGGAAGAGGACCGGGAAGCGATTCGGCAAGAGAGAGAACAGCAAGCAGCTATCCAGCTTGAGAGAGCGAAG
Seq A exon
GTGACTTTCTTCCTTTTCTTTCATCGAGAGCTGTCATGTGGCTCAACATCTGTGCTCAGCAGTCCCACCTCATGCCCATCTTAGGGTTCCTCATCAAACACTGACCAAAAGCAACCCCATCACTGACAGAAATCAGAGTAGACACTCCAGCAGTACAGGGACCTGGAGGCAGGAACTGAAGTAGAAGCTATGGATAAACTGCTTATTGGGCTAGCTCTCTATGGCTTGCTTAGCCTACTTTCTGATACCACTCAGGGCCACATGCCTAAGGGTGAGACCGCCCACAGTGGACTGAGCACTTCTACATCAATCATTAGCCAGGAAAGTGCTCCACACACTTGCCTACTGACTAGTTTGGTAGGTGCATGTTTGAGGTGGACATTCCCTCTTTTCGAAAGTTAAGTTGATGTACGACTAGCCAGCATGTGTCTCTCTGGAGTACTCATTTTCCAGCCATCCTGCTAAGGCTCCAGATTGCAAGCTTCTCTGTTTTATGTCCCTCACAGAAGTTAGTGGTATCTACAGGGGCCCATTTCCTGTGAACCTTTGCCTTTTTCTCTTCAACTTAGTGCCAGTTATTGGTTCTTTCCCAACCTAGCAGTGTGGCAATATCAAACTACCTCACGAAGTATTGGCAGAGAACCTTCTGAGCAATAGCCTGAGTCCTCTGTTCTTGACCCCTCCCCATCACCGCCCAGCCTTTGTTAAACACCAAGCAGGCACCATGGTGCTGTGGATCACTTCACTGCTTCTTCTGTTCTGTGGTTTCTAGATTTTAGATTCCCACCTCAAGTTCAGTATGCGTTCAGAACGTTATTTTGTCTGCTTGTTTGTTTGAGAAGGGGTCACTACACTGCCCATTCTGGTCTTGAACTTGTGGACTTAATAGCTGGGCTGCAGACGAGAACCATCAGACCTGGTTAAGCCCTTTGAACAGCTCAAACAAGAGCAGCAAAAGTGAGTGACAGAAGCCATCACTAGCCAGTACTGGTTTCAGATCTTCTTCTTCCAGAAGACACAGGATGCAGCAGGAAACCAATTGCACAGTTGAAATTTAGGACCAGGAGAGCTACTAGAACTCTCCCATCCCTCCTGTATCTTTCTATCTTATTTTTCAAAGCCTAGACCCTTTTGGCAAGTTGATTTTTATGCACAACAACAACATAGGAGACAGGGTTTATGGCTAGCCTGTCTGCTTGCTTCCACGGTCAACTTCAGTGGCAGGTTCCTTTCTGAATTTTAGATTCAAGCCCAGAAAAAGTTAATTTCCTTCCTTTTTTGGTTTATGATGAAATGCTTTAGAGATTGAAGCAAGGGAAGAATGATACAAATGACCGAGGGTTGATGTCCACACAATCTGCGTCTGTGCTCTCCGATAGGAGGCCATCTGCAGGGGGCCTGGGAGGGAACCAAGACGTCCTAATTTGGGTCCTACCTCAACTGTTGATATTCCCAGAGCAAATAACTAAACCCATAGCAAAGCTGCCCAGAAGCTTGGAGACCTTGTTGCTAGTTCTTGTTTTGAAAATGGACTTTACCATCTGTTTCATCGCTGTGTGGTCACCTAAACGGTGGTGGCAGGGCCATAGTCTCGACTGGTGGCTGGCTTAGCCCCAACAGGCTGCACCTGCTCAGGAGCACAGTGCCAGCAGGAGTTCAGACTCAAGTTTAGAACCAACTGTTCGAAGCTAGGAAGAAGATACCAGGGGAAGAGCCTGATCCTTAGGTTTAACCCCCATTGGCCCCTCTCCCCCAGCACGACAAGATGTTTATCCACAAAAGATCTCAGGTTTTCAGATCTGAGGCCCTTTCAAAATACTTGGTCTTCTATCACTCAAGTTTATAATGCCCAGTGTTACATTTCCTAGCATGTTTTCCTTGTGTGTGTATACTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTACTCACACATTTGCATATTTGTATGCATGTGTTTTCCTAATCACCCTCCACCTTAATATTTGAGAGAGGTCTATTACTGAACCTGGAGTTCACCATTTGTCTGGTCTAGCTTGGGCCAGCAAGTGCCAGAAATCCCCCTGCCACTGCCTCCCCAGAACTGGAATTAAAGATGTATTCCTCCTTTTGTCACAGATAGTGGGACAGTTCCTCATTCTTGTACAGCAGACACTTCAACAACGAATCTGCCTTCCTAGCTCTTCCCTTGCCCCAGTCTACCCGCCCCGGTTCCCACAGTTGGGAGAGTGTCTGGGACAGGTTAAAGTACATAAACAGGTTGTAGGAGTGGAGAGAGAGAGAGCTGACCGCCCCTCCGCTGTGCATCCCTCCCCAGTCCCTTTGGGGCTGGTTCTTTATCGAGGATACTGAGATTACTGCAGAAAGAAAATGGCTAGGCTGAGAGGAGTGAGTCACTCACGGAGTCATCCCTGCAGATCTCTGGATGTGGCCAGCAACTGTAAAACCCAGAGGAGAGCTCTCTCTGGAAAGTGATTTCCTTGTTGCCTGGAACCATCATTCATCCTATGACACGTTTTGATAGGAAAAAAAAAACGCTTCTCTCTCCTCCTCTGTTCCTCCCTCCTCATTCTGCACTTCTGTCTCCAG
Seq C2 exon
TCCAAACCTGTAGCTTTTGCGGTGAAAACGAATGTGAGCTACTGTGGTGCCCTGGATGAGGATGTGCCCGTTCCCAGCACAGCCATCTCCTTTGACGCCAAGGACTTTCTTCACATTAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007666:ENSRNOT00000059430:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.875 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PU(92.9=97.5)
A:
NA
C2:
PF120523=VGCC_beta4Aa_N=PD(2.4=2.4),PF0001823=SH3_1=PU(44.2=46.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]