RnoINT0028255 @ rn6
Intron Retention
Gene
ENSRNOG00000007666 | Cacnb4
Description
calcium voltage-gated channel auxiliary subunit beta 4 [Source:RGD Symbol;Acc:68385]
Coordinates
chr3:37972155-37974195:-
Coord C1 exon
chr3:37974044-37974195
Coord A exon
chr3:37972251-37974043
Coord C2 exon
chr3:37972155-37972250
Length
1793 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATC
5' ss Score
4.41
3' ss Seq
GGTTCCTGTCATCTTGTCAGGTT
3' ss Score
7.26
Exon sequences
Seq C1 exon
CGGAAGTACAGAGTGAAATTGAAAGAATTTTCGAGTTGGCAAGATCTTTGCAATTGGTTGTTCTCGATGCAGACACCATCAATCACCCAGCACAGCTGATAAAGACATCGTTAGCGCCCATCATCGTCCACGTGAAGGTCTCGTCCCCAAAG
Seq A exon
GTGATCACTGCATTCCTGTCTATGCTCTAGAAGCTTCCCTCTGGAGGTTCCTCTCGACCCTATTAGTTTGGGGGCAGAAGGATGTCTCCAGAGCTCATTAGTCTGCTAATGAGCGCCTTTTAAAACAGCACTCACATTCTAGGGATCTGAGGGGAGTTGAGAGTAATAATATGTCTCTTCGAGAGGCTCCTGCCTGCTGTCAGCTTGACAGGATACAAACAGAGCTCAAGGAAGGAAAATTAAAAGTAGACTCTCGCTTCTCATAGGCTGTTTATTCCCTCTGGGCCAATGTCCTGTTTAACACCAATTCTTAAATCACCTCTGTTCTCTGCCCAGTTGAGAAAGGAGTACAGAAACCAGAGAGATATTTTATGTAAGGTGAAATATCGTGTGTAAACATCTCCCACAGCCATGCTACAGACCTTGTCATGTGTGTGTAGCTGGGCTCCTTAAAGAACATAGTTCTTCCTTGGTTAAGTACAACTGGTCATGATGGTAACGAGTGACCAGAATATAGGAAGATGGCCCAAATACCACCCTTGATTTTGATGTCCTTTTAGTTCTTACATTTACTTAGGTTTTTCACATCGGTGTGTGAACTTGTGCTGTCACAGCGTGTGTGTGGAGGCCAGAGGACAGCTTGTGGAAGTAGGTTTTCTCCTTTCACCATGTGGGCTCTGAGGATTGAGGCTCTGAGGTCATCAGGCTTGGTAGCATTACCCACTGAGCCTTCTCACTGTTCCTGCTTTGACTTGTAAACAGTGATGGTGTTGTAAAAGTAAACATGGAATAGATACTCATGAGAGGTGTTATCTTAATACTTAGCCCCTTTCCAAGGCCTCCTAGAATGAGGTTGGTTTGCCTAAATGCAAAGCCAACTCCCCAACCGAACCTCGGTCTCCTATTGTGGTTAAAGCCTAGAGAAGCTTGTGATGTTCTCAGCCTCTTCGAGGGCACTGCTCTTCTGCCATTAAGTGAGGGGATCCCAACCATGGTCAGTTAGTTCTGGAGAGTGGGTAGAACAGACCAGCATTCCCTGGACCACTGGAACTGTCCTTGCCCCTTGTCTAAGCATCTTCTGCAGTGAGGTTGTCACCCCATCCCCACTGCACCACCACTGTGGTGTCTGGAAGTCCAGGGTCAGGCACTTACATGGACCCATGCACTAAGGTATCACAGACTTCATGAAGAAACACTGTTGAAGTGGAGAAAAGCCCTGCTTTAACATAAACAAAACATGTAAGAGTGCATGGCCAAAATGCAGCTACATCTATGACCAAAGCTGTAGATACAGTCTGTCTTATGTCCAGCAATGTTTGGACGCAAATGTTTTACCTACGTATTCAATCCTGAAATAGTTTAATTTAAAATAAAACCAGATATTGTATTAATTATTGAAAACTTTGACATGCATAAATATCTGACATGAAGATAATGAACCGAAGTATTACTGAATCAAATAATATCAAAATATTGACTCAATCTAACCAGGAAGAGACCAGCTCTTTCCCTTTGACAGGAAGCTCTGAAGCCCGCAAAAGACGTAAAAGTCCAGGTGGGAAGGGAGGCTGTCCTCAGGACCCCACAGGGAGCTAGGACAGGATGCACGTGCCCAGTGTACTCTAGGCCCACAGGGCATAGCACCGAGATTCTGAGTGGGTGATTTCTCATACCGTAGATTCTCCTTACTAATCCTCAGGGTTACATAAACTGAGAAAAAAAAATCTGAGCCCAGTGTATTTGGTTTTCTTTCAACTCATTGACAATGCCTCGGGTTCCTGTCATCTTGTCAG
Seq C2 exon
GTTTTACAGCGGCTGATTAAGTCCAGAGGAAAGTCCCAGAGTAAACACTTGAATGTTCAACTGGTGGCAGCTGATAAACTGGCCCAGTGTCCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007666:ENSRNOT00000059430:10
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:
PF0062516=Guanylate_kin=FE(27.6=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(17.1=100)
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:
CGGAAGTACAGAGTGAAATTGAAAGA
R:
GGGGACACTGGGCCAGTTTAT
Band lengths:
246-2039
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]