RnoINT0028259 @ rn6
Intron Retention
Gene
ENSRNOG00000007666 | Cacnb4
Description
calcium voltage-gated channel auxiliary subunit beta 4 [Source:RGD Symbol;Acc:68385]
Coordinates
chr3:37992459-37997559:-
Coord C1 exon
chr3:37997437-37997559
Coord A exon
chr3:37992590-37997436
Coord C2 exon
chr3:37992459-37992589
Length
4847 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
CTTTCCTCTCTGCGTTCCAGAAA
3' ss Score
10.06
Exon sequences
Seq C1 exon
TCCAAACCTGTAGCTTTTGCGGTGAAAACGAATGTGAGCTACTGTGGTGCCCTGGATGAGGATGTGCCCGTTCCCAGCACAGCCATCTCCTTTGACGCCAAGGACTTTCTTCACATTAAAGAG
Seq A exon
GTAAATGTAGGACACACTGCGCCTGCCAAGGAGCCAGAGCTGGGAGTCAGCCTGTGCCAAACCCACAAGAGTGACCACCCAAACAGCTGAGTGTGGAGCCTCAGTGAATGCCCTGGACCTCCACATCCTTTCATCTCACTGAGATTTAGAGGCTGAGCTCATCGCCCGCATCGCCTCGTGCTTCCAACAGTACAGCAACACTCAACATTCAGAGTGATAGTATGGATTTTGGATTTTGCACCACACACGTGCTCGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTATCTCTGTCTCTGTCTCTCATATCTATCTTTCTGTCTCTCTTATCTATCTCTCTGTCTCTCTCTGTCTCTCTATCTCTCTGTCTCTTTCTATGTCTCTCTTATCTATCTCTCTGTCTCTCTCTCTGTCTTTCTCTGTCTCTCTGTCTCTCTGTCTCTCTGTCTCTCTGTCTCTCTGTCTCTCTGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTTTCTCTCTCTCTCTCTCAACACACACATTGGGAACCAAACCCAAGGTCTAGTGGAGACTAGAGAGCCATGACTCTATGGATCTATGTTAGGGTAGCATGAGTTTGGTAGCAGCAGTATCCAGGAGGGACTTTTTACAGAAGGCTATTGTCATTAAAGACACCAAATGGTGGCTCTGAAATAGTTAAAGCAAAGAAAGGGCAGAGGACTCTGGGAAGCAAACAGCTGGAGGGGTTGAGCAATGTGAAGAGGACTTGGGGCTTCTCATGTGGAAAGGTAGAGCAGTAAGATAATACAACCAAAGCTTGGGTTCTGTGTGCAGGTGAAGGACAGTGTAGTTCTGCTTTGTCATCGTGCTAGGCGTTGGGGGATGCGACATAAGGACCACTGACGGTCCTTATGGGAAAGGCACCCTGAGCCTGAGGGCAGGGTGAATAGCATTCATGATTTCTGTATGTAGAAAAGCAAAAACCTGGACTCACGTCCTGGAGGTTCACAGAAAGAGAAGGTGACCTCGGTAAGGAGGAAGCGTCAGAACTGGACGCAGAGTGACATCAGGGAGGGACAACTGAAAGCACCATGGTATGGCCAGAGAACAGTAGGAAGAAGTAAAACAGAAGAGGCCATGTCTACGATTCGAGAGATAGAGCCTTTCTCTTGGCTGTGCTCAGGTTGAATTCAGGGCCACATGCGAACCAGACAGACACTATTGCTGAGCTGTTAGCCCCAGCCCTAAGGGAACATCTTGCACGAAGGAAAGAAGACTGCTGCGTATCACCAGACAGTGGGCTGCAAAGGAGTTTAGAATAAAGCAGAGATGTGATCAGCCCTGTGTGTGGGCACAGGAGCTGTGGTGGGCAACGGGGAACTGCATAGGGCTGCTTAGAGGGAGAGTGAAGGAGAAGGTGAAAGGAATTTGGGGGTCCCACTCTGCTACGTGTAATAGAAAAAGCAAAGGAGGGGGGAATAAAGGGATGGCAGCCAGCTTATTGAAGTTTCAACAGCCTCTAAATTCAGCTTTTGAAAGAAAGAAGGCAGAGAGGGGACCAGATGTTATTGCAGTGCATGGCCATGAATTTACATTTGAACACGTGTCTGGGACCACAGCCCTCAGCATCTGACTGGTTGAATCTCTCTCATTATTTTCACCAAAAGCAACTAAGCCATATTTATGAGTTGCCATCATTTGTCCTTTCAAAGGTGATGCAAACTTAAAGAGCAAGGGACAGCTTTCCACACATGACACTGACATTCCAACCTTGCCGTATTTTATTGCTTTTTACATTGTACTAGTATTCTAGTTTTTATTAATATTCCTTTTAATTGGGCATATTTATGTGACCATTTGATACCTGTTACATGTAATGGGTCACAGTGAAACAACAGAATAGTTAACACTTTGGGCTCTTTAAAATTAAAATGATAAAGTTTTCTGAGGTAGGGTATGACATTTTAAAACATCTATGAAGCCTGTGCTGGCCAAGTTGGGGTGACTGATCTTTGCATCTGCATAGAGGCACTTTGTGTGTGGCACCTTTGAGCCGCTCTGACAGTACTTTGGGTCTGTGAGCTGTTGTTGTGAGCTGTTGTTGTGAGCTGTTGATCAAGGGATTTTCCTTCAGTCTGACAGCTCCTTTTCCTTTTGTAGTTTCTGAGCTAGTAATTGTAGATGGATCCGAGCCACCAGTTTCAGCTCTTGCAGATCAGAGAAGAAGACATCTTAGAAAGGGAACATGCTAATCACTTTAGGGAAATCAAGATGGAGAAGACTGGAAGAGTTCAAAGGGGCCTTTCCAGAAAGCTGGCTCAGCCTCCGGGACACCAGCAATCCAGATGGGCATGCTCCTGTAGCAGGCTGATTGCTTCCCGTCCAGGCTTCTCTCAAGCACCGTTCTAAGTGCTTTCTCAGCTTAAAGGTCAAGAATAGCCACAACGGGGTCAGTTCCAAAGCCAAACAGAGAGAGCCTTAAGCTTCAGACTCTGCACAGTGCCCTGCTCCCCAGGGGCCAGAGAACTCTCAGTCACTTTGAGTAGGAGGCTCAGTGTTCTTTAGCTGTTTCCTAGAACTACAGGAAACCACTTTGGGAACTAGCATTAGCCATCTTAGGCAGCCCTTTAAGGTCACTGGGGTACCACTTAACAAATTAGTATCCTGGTGGGCTGACTTAATTTCAGGAAATAACTTAAGCCCTAGGAAACTCTGACTCATGGTCTGTGTTATCCCTGCCACAGGAAAATGTAAACTGCAGAACTTTTGCACCAAAGATTTCAAAAGGGAGCACTTGCCTTTCCTTAATTACCAAGTAAACAGGCCTGTTATTTCAGGTGTGTCACCCTGAACTAAAGTCAGGAAACTAAGACCCAGATTGTTCAAAGCTCCCTATCCCATCAGCTCACGCGCCTTCCAACCCAGAGTCATGGTTGGCACGAAGCAGGAGCTCTGAGCTGGAAGAGCTGAGGCCTGCCATGTCACTGTCATTTCAATGTGAGATTGTTACTTAGAATTATTCAAGTTACTCAGAATTCCAGGCAGTGATGACTCAATGAATCTTCCAGGCTTCCATCTCACAATGTCAGTCCTGGAGATATGCAAATTCCACTCTCTTCTGGGCTAAGCAACTCAGACCTACAACTACAGTTGCTATATAGCAAACTACAGTTGGTATATATTCAAACACACACATATGCAGACATGCACACATACACAAACACACATATACAGACATGCACACACACACATATACAGACATACATCACATACACAAACACACACATATCCAGACATGCACACATACACATATGCACACACATACACACTATGCACACACATACATATACATACACACAGAAAAGCATACACACACAAATACACACAGAGACACACACACATATACACACATACACATACAGAGCCACACACATACACAGGCACACATACACACAGATACACACACACACACAAACATGCACACATATGCACATATAAACACATAAACACATATACACTTATACACATACATGCACATGTACATACACAGACACACACACATGTATACATACACCAAGATACACACAGACATAAAATCAAAGATATACACATAAAATCAAAGGAAATGAGTTTCTTATCAACACTGGTAAAGGACACTTTCGTACTCATTCCTAGAGGTTTTCATGATATAATTTTTATCTATTTTCTAGAAATTACCAGTAGAAACATTCCCTTGAGACAGGTGGCTTAGACTAAACTTCTGTCTGCCCTGGGCTCAGTCAATCAATTATTGTCAATATAATTTTGTTGGCATTTAGAGTAGGGCCATGCTGATAGATGGCCACCCCACAGAGTCTTTTTTTTTTTTTCTTTTCTTTTTTTCCGGAGCTGGGGACCGAACCCAGGGCCTTGCCCTAGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCCCACAGAGTCTTTTGTGGACTTGTACACCATGAAACTTGGAAGAAATCTTGGCATTCCCATTAGGCCCAGGCCATATAGACATTATTTCCAAATTTTATGTACAAACATGTCATTCGTTCAGACTTCGTAACTTCAGACTTTTTCCTCAAATAATGGCTGGACCTTAATTTGAAACCCTGCATTTGAATGAGAGTTGACAGTAAAGTGTTGTGCACATTTCACCCGAAAGCTGTTAATGAGTGACTGCCCATCAGCGTTTTACACCCGACATGTTTTACACCCGGCATCAATACAAATTGTGTCTGGTGGGATCTTTTGCCTTGAGGATTAAGTAGGCCTTCTTGAAAGAACTGAATGGATCTAGAAGTTAGGGCCTGCTTTTGAGAAGAGCTGACAAAAAAATAGTGTGCATGGTCCTAACTGGCCCACTGCCTCTGCCACAAAGCCACTTACCCTGAGACGCAGCCTCTTGAGGCTTTGTGACTATTTCCACAGTAGGACAGCAGATGCGACAAGTTGCTGTACAGAGCGTATTTGTCATTTGCGCCTTTACAAATAAAGCCCCTGACGAACCCTCCTCTCATCTGTGAGATGAAAACACTTCCTACAAAACACGGAAGCATGGTGTTTGTGGTCTCGGTGGCCTGTGTGCACAGTGGGACATGGCACATGGGACGGATAACACTGTATCACTCCGCTTCCTTATGCACACGGGACGGATAACACTGTATCACTCGGCTTCTTTATGCACACGGGACGGATAACACTGTATCACTCGGCTTCCTTGGAGTTAACTACTGCAGTGCGAGGATGACGGAATCACTATTGAGTGCAGCTTTCCTCTCTGCGTTCCAG
Seq C2 exon
AAATATAACAATGATTGGTGGATAGGAAGGCTGGTGAAGGAGGGCTGTGAGATCGGCTTCATCCCAAGTCCACTGCGTTTGGAGAACATACGGATTCAACAGGAACAGAAAAGAGGCCGTTTTCATGGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007666:ENSRNOT00000059430:3
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=0.227
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
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]