RnoINT0028207 @ rn6
Intron Retention
Gene
ENSRNOG00000008031 | Cacna2d4
Description
calcium voltage-gated channel auxiliary subunit alpha2delta 4 [Source:RGD Symbol;Acc:1562038]
Coordinates
chr4:151404890-151406667:+
Coord C1 exon
chr4:151404890-151404910
Coord A exon
chr4:151404911-151406549
Coord C2 exon
chr4:151406550-151406667
Length
1639 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
CATTCCTCTGTCACCCACAGCCC
3' ss Score
9.67
Exon sequences
Seq C1 exon
CCAAAGCTGTCTTCCATCACT
Seq A exon
GTAAGTAGTTCTGACTGAACGACCCTATCTCATCTGGGTACACCAGGGAGCTGTGGCGCTTGCCTTAAGCTGTGTCCAGGGAGTGAGCACAAGCAGGCTGAGTCTCTACATCTGAGTTCTTTACCCTAGGACACTCCTTGGTTAGGGGGACGGGGTGTCCCCAAACACTTAATCCACTTTAAAGCACCATTTCTGGGAAGCAAGGAAACCCAGGCTTCAGGCCACATAAGTATAGCCAGTCCTGCCTTAGGAAACAGCCATCGACTCTTGAGAGGTTCCAATAATTAAAGGGAGGTGTGACCCGTTCTGTAGTTGAGATGCCACCAGGTCACTCCGGAGACAAAAGCAGTGGCCCCTGTGCCCAGGCACCTGCCAGCTTCAGCAAGGCTCCAGGTTTGAATGAGTATCCTCTAGGATAGCACTTGAATGAATTGTGCCTAAGGCCACAGTGCCTCCAAGACGATGGCATGTGGAGGTGGCCCTGACACAAAGCAAAGGAAAATGTTGTCCCAGCTGCTGGGAAAGAACATCTCTTCTTTATAAATGAAGACACAAATGGCACCCGGGTCCCGGAGATGTGGGGCTCTTGAGCCATAATGGTGCCTGACTTCCGCCCACCCTGCTAAGCAGTCTCTGGCTTCTGCACAGCTGGTAGCAAAAAGACTGCCACTGCCTCCTTTGGCTTTCTAATATAAATGATGCCCCCTCCTTCCCCTCCACCCCTTTGGCTGCCGCTGACCAGGGCAGGCCCTTGGCCCTGCAGTTCCTGGATGTGTTCACCTTCATGACTCCTGGCAGTGGTGGGAAGTCTCCAGCAGTTCTCACAGAGCCTAACTGGAACAGTGACAGAAGCCATGAGTTAGGTCTTCTCACTCGCTGTAGGCTCAGGATGCAGCCAGATGTGCTCCTCCCACCTGCAGGCTCTGCAGGGTCGACAGGAAACCTGAAGGAAGCCACCTGGTCCTACTCTGCGGGGACAGGCAGAGTATAGGTATCAGCACTAGAAGGTCCTCTCCAGTGACAGGAGAATAGCCCAACTTTAGGCCTGGTAGGAGAAGAGCCATGTTAGGAGGCTTCCAGCCTCTGACCCCGAAAGGCCAGGCGCAGGGATGCCCAGTAGTGTCAACAGGAAGGGAAGCCAGCTGAGCTGTGGCTGCTTTCCCCTCCCACAGGAACTTTAGCCTGAAGCCTGCCATCTCTCTTAGCCTCATTGTCTCTGGGTCCAGGCATGGAGACCTGTGACTCTCCTCAGTCCTCGTGTGACCTTGCAAAAGCGACATCGTATTTGCACCCCCATTTCCGGGTGCTTAAAATGGTTACTGCCACCTTCCTCCCCTCCCTTCTTTGCAGCTGGGCTGTAAGGGGTAAAGTGTGTTGATGCTTTGGGACCCCAGTGCTGCACAGTGCCGGCAGATGCTCCAGAGATAAATCTCAGAGGCCCTGGAAGGGGCGAAACAGTAGCAGCTCAGCAGGGCCTCCACTCTCCACAGCAGTGCCACTGCACCTCACCACGCTGGAGTGCTGGTCTGCTGTATCCCCGACCCTTGAAGCAAACTAAAATGCGTCACCCTTGTAGATGGGCTTCCGAGGGCCTTTGTGATGTGTGGTAACCCTCTTCACATTCCTCTGTCACCCACAG
Seq C2 exon
CCCACAAGCACAAGAAGCAAGACCTCCTGCACCCCTGTGACACAGAGTACCCAGTGTTCGTGCACCAGACGGCCATCCGGGAGGCCAACGGGATCATCGAGTGTGGGGGCTGCCAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008031:ENSRNOT00000010746:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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]