RnoINT0028196 @ rn6
Intron Retention
Gene
ENSRNOG00000008031 | Cacna2d4
Description
calcium voltage-gated channel auxiliary subunit alpha2delta 4 [Source:RGD Symbol;Acc:1562038]
Coordinates
chr4:151367840-151369390:+
Coord C1 exon
chr4:151367840-151367935
Coord A exon
chr4:151367936-151369262
Coord C2 exon
chr4:151369263-151369390
Length
1327 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
CATCAATCCCACTCTCACAGGAA
3' ss Score
6.8
Exon sequences
Seq C1 exon
AGAGTCAGAGCCTGGTGTGGAAGTGGCCTTTCTGGGGACCCGGGCTGGCCTTCTAAGAAGAAGCTTGTTCGTAGGCTCCGAGAAGGTCTCTGATAG
Seq A exon
GTGAGTCCTGCCAGGCACCCGGAGGTTGGAGGTGGGGACTCTGGGAGGGAGGAACATGTCACAAGTCTTGGGTCCCTTTGGGGCATGCAGAGCAGAGATGGTCTCAATAGGCTGTGCCCTGTGAGTCCATTGACATAGACACCGGGAGAACAGTTGGTGGTGGTGTCAGTCTTTCCTTCCACCTGCTCAAGGTCCCTCACTAAGTCCCAATGCCTTCAGCCATGAGCTCCTCAGTGACTCTCTCTGGACTCAGTGACAAGTCCACACACCCTAAGCAAGGTTGGAGGCTTTCTAGGAAAACAGTTTTGGTGGCTTTCCCCTCTCCTTTCTTCCTTCCCTCCCCTAATTCCCAGAGAGTCGGGGTGGGGGTGGCACCATCCTTTAAAAAAGGGGGGGCTTCTAAGGGGAAGACAGGGCAACACACAGACCTTCTTCAGGCGATCAAGGACTTTGGGAAGCTGGGAATGCAGCGGTCTGGAGGACCACAGATGCACTGTGTAGCCCGGGTGGAGAACTCCCTTTACCTGGACCATGATGCAATAGGCAATCTGGGGACTCTGGAACAGCAAATCTGCTCTCAGCACAGGCAAGCCACTCACTCAAACTTCAGTCCTCTACCTGGGAATTACCCACAGGTGCCACTTAGTTTTGCACCCCACCCAGCTTCGCCCACTTCCTAGTCAGCTTCTCGACCAGCCTCCCTCTGTAGGCTTGTGTGTGCTCAGGGAAAGCAAACCCGTAATTAGCAAGGAAAAGCTTCTCCGAAAGGAGACTAATGTTGCACACTGAAGCCTTTCAAAGTAACCATTTTAGGGCAATCCATGCCTCTTTACTGCAGTGATAGAATTGACTGTGGGATCTCCTCACTCGGATCTGCCAGTGAACCAGACAAAAGAAATCACCTATTCCCAAAGGAAGTGTACTTTGTTGCCAATACAACTGCCTGTTCCTGCCGGGTACCCGCTCAGCCTCTGCTGCCCTCCCCTTCTACCAGATGCTCCGGCATTTTGCTTCTGGAAAAGGCAGGAACTGCCTGGAGCAACTTAAGAGCTGATAACTCTTCATTCTTTTTTTTATTGAGAGCCCTTGAAACAGGTCATGCCATGTAGTCAACATAACTGAGAACCCTGAACATCCTCTCTAGTCCTGGGAGTGCGAGGGTAACAGTGTACTTACTGCCTCTGCTGGGTGCAGGGGCTGTTTCCTACCTGCATCTCAGCCAGCACAGGATGCTGGTCCCAGCCCAGCCAGGATGATCATGTAGGACACAGGGAAAAGGGACAGACATCTTCCCAGATTTGAGGAGACATCAATCCCACTCTCACAG
Seq C2 exon
GAAGTTCCTGACACCTGAAGATGAAGCCAGTATTTTTACCATGGACCACTTCCCACTGTGGTATCGGCAGGCCTCTGAGCAGCCCCCAGGCAGCTTTGTCTTCAATCTCCGCTGGGCAGAGGGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008031:ENSRNOT00000010746:25
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:
NO
A:
NA
C2:
NO
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:
GAGTCAGAGCCTGGTGTGGAA
R:
CTGGTCCCTCTGCCCAGC
Band lengths:
223-1550
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]