RnoINT0028184 @ rn6
Intron Retention
Gene
ENSRNOG00000008031 | Cacna2d4
Description
calcium voltage-gated channel auxiliary subunit alpha2delta 4 [Source:RGD Symbol;Acc:1562038]
Coordinates
chr4:151333540-151336297:+
Coord C1 exon
chr4:151333540-151333673
Coord A exon
chr4:151333674-151336219
Coord C2 exon
chr4:151336220-151336297
Length
2546 bp
Sequences
Splice sites
5' ss Seq
CGGGTGCGT
5' ss Score
7.91
3' ss Seq
TGCCCTCTCCTCCCCGGCAGCTC
3' ss Score
10.8
Exon sequences
Seq C1 exon
GTTACTACACACAGATCTCCACGCTGGCTGATGCGCAGGAGAACGTGATGGAGTACCTGCACGTGCTCAGCCGTCCCATGGTCATCAACCACGACCACGACATCATCTGGACAGAGGCTTATATGGACAGCCGG
Seq A exon
GTGCGTACGATGATGGCTCCAGAAGGGCCGGGAGGCCAGAGTTAAGGGGAGGAGCAAGAGGTGACATCTTGGTTCAGAGAGCCCAATATTGTGCCTCCTTGGGAGGAGTCATCAAGTGTCATAAAAAGCCTTCCACCACCTCCTTCCCCTCATAGCCCTCAGCCCAACCAGCAGCAACATTTTGTGTCCACCTGCCCCAGAGGCCTAGATCCCTGCGCAACAGACGCCTGCCCCTGTGTTCCCTTCCACTCTGCATTACCCGCCATAGTGTCCTCTCCCACCAGCCATGAGAAGGAAATATTCACACCAGTGCTTCACCATTCTGTAGCCTCGTCCTGGCCTGGCCTGCATTTCACAGGCTGGAAGATGTGATGACTTACCACAAAGGAATAAAAATATCTCAGATAGGAAGTCACTGAAGATGTTTGGGGGAATGTGAGGGAGACCTTCCTGCCTCTTCCCAAATCACACCTGTCTGTAGCCACCTGCCTTGGTGACACTATACAAACTAGGATTAAGACCTGACAGCGTAGAGGTTTCGTGCTGGGCACCTCAAGCTGGTAAGGCTTCTGGTCACAGGGACCTAAGCTCCTTCCTGCAGCTACTTTTAGTCCTCAGGCCAAGCCCCATCTTCCTGTTTCTAGGGCTAGTGTGGGCAATCCTGCCCAGCCCCTTAAAGGAGACCACTCAGGAGTCCTCCCAGCTCACACATTACTGACCTCAAACCGTGCTGACCCTTTCAGCTTTTCTTTTTCTGTGCTCTGTATCTGAGTACAAGGGGACATGAACTTCTAGTCTATAAACAATCTTGCCAAGCTGGAGCCAAGGCCTCAGGAACCCATTCCAAAGTTCCTTCATGGTACGAGGGGCACCTGACCAGCTAGAGTGGGCTCTTCCCAGAGCCTTGCCCAGAGACCCCATCTGTCCCACCCTGATGGCCACTCCCTGAGCTGAGACCACAGGGAAGAACCTTCCCCATCTGCTGCCCCCTCCACTGTCATAGGCCATCTGACCCTGGTTGGAGAAATGGGGGCTGGGGGAGAGGCAAGAAAAGTGAGGCGAAGACCCACTCTGGTCCTGTCTTGACGTCCCCGCATTGCTCTCACTCATTCCTTCTTGCTTGTTCCTCCTCCCTTCATCCCTGCCTCCTGCCCCAAGTCAGGCATGTGCTCCCTGGGCCTCTCTCCCATGTGCATGTTAAGGTCATGCTGAGGACCTGGCAAAAGGAAGCCTGAGAACTTGCAATGTGAGAATAAACTGACCATGGACAGTGGTGGCCACATCTAGGAAGCAGCCAGACTTGAGCCTAGCAGAGGAATTCGGAAGGAAGGGACAGTGGCAGAGACAAGCCTTGCTACACTAAGCCACTGTGCAAATGATTTCAGGCAACTCCTGTCAGCCATACTGAGGTGCTTCACATTCAGCATGGCCCCCTAGGGTCTGTTTCTGCCCCTGCCTGGAGTCAAAGGCACAGTTTTATCTTTACTTTTAAAAAGATTACCTCTGTCTCCTCAGTTAAAGCCCCTGGTGTCACATCTCCAAGTCTCCCCTTGCCTATCCTCTGCAACTTCAGCATCCTTGGAAGCCAGGCCTCTGTGCAGATGACTGGACCCTTCAGGTTAAGGACAGTAGGCCACCAAGAGGACAGGCAACCTTATCCTGTACCATGATTAGAGCCAAGAGCATGGGGACAGCTCACGCTACCCAAATATGGGATGAGTCCCAAGGGAGGTAGAGGAGGAGTCCCCAAGGCTTGGCTGCAGCTCCCCTGACTTGGAGAGCCACAGCTCCTCGAAGTCTTGTGTAGCTGGGAAGACGCACCCAGAATAAAGGAGGTGCCAGTGCAGTCCATGCAGAAAGACCCTTGCTTCCCAGCTCCATGATGAAACATTGAGGAAGGAGAAGAGAAGATCCAAAGCTGTCACTGATCCAAGGAGGTCTGGTGCACACACAATGGCCTTCCGTCGATTTTGAGCAACAGACAGTTTGCACAGAGTCATTGTCATCTTCACTATAACAGAGTCACGTGTGCAGGCCCCTTCTGAGGTACCAGGGGAGTCCCTTCCCAATTCTGAGTGGACACAGCTAGGTCTGCACCACGTGTGTTAGCGTGACCTGAGGTGGCCAATGCTCAGATGCCCTGCCCTCAGGCATGCTCCTAACCCGTGTCTGTATGTCTGAGCGGCTGCAGAAATGTCTTTCTGTTCACTGGCCTGGGCCATGCATGGCTCAGGTACATATCAGAGGCTTCTGGAAAGCGCTGTGCTATGCTGTACTCTGCTGGGCTTGGGCTCATCCTCAGTGTGCCCAGATGAGACCGCTTGGCTCACATACGGCTTTTGCTGAGTGACATGAACCTAACCTGCCTCTCCTCCCCGCTCTCCCACCCTTCCCCTGGCACTCCCGCTAGCTCCCCTTAGCATCCCTCCCTCCCCTGCCAGGTAAGGGTGTGCTAAAAGTGTGGGTTCCCACACTGCTCTGAGTACCCAACCCGCAGACACCAGAGCCCACTCCTCCTCTGATCTCTGCCCTCTCCTCCCCGGCAG
Seq C2 exon
CTCCTTACCTCAGAGGCACAAAGCCTGATGCTCCTCACCACAGTGGCCATGCCAGTCTTCAGCAAAAAGAACGAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008031:ENSRNOT00000010746:13
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:
PF135191=VWA_2=PD(10.6=42.2),PF0274313=Cache_1=PU(8.5=17.8)
A:
NA
C2:
PF0274313=Cache_1=FE(26.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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]