DreINT0040100 @ danRer10
Intron Retention
Gene
ENSDARG00000023886 | cacna2d4b
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4b [Source:ZFIN;Acc:ZDB-GENE-100422-18]
Coordinates
chr25:18957470-18959547:-
Coord C1 exon
chr25:18959480-18959547
Coord A exon
chr25:18957516-18959479
Coord C2 exon
chr25:18957470-18957515
Length
1964 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCAGTTTTTGTTTTCTTTAGGTC
3' ss Score
11.14
Exon sequences
Seq C1 exon
CTTTGGGATGGTGCTTACGAAAGGTCACGGCCAGTACATGTTCTTTGGGAATGTGTCAGTGGAGGAAG
Seq A exon
GTGAGCTCAGCGTATGATTTATAGCATGTGTGATACACTGGTGTCTCTGTAATCAGGTGGAAATCATACACTGGCTTGGGGTCAGAGTGACTTTTTTTGCTTTGTGAGTATGAAACGTTTTAGCAAGAATGCAGTGAATTGATCGAAAGTGACAATTTGTGTTTCAAATATATAATACTATTTGATTTTCTGTATTTCTAAAATAGATTAAGCTTTAGTGAACAAAAAAGCAAAAGCTAAAACAAGCCATTTATATGAAATTGTATATACATTTTACATGTAATGCTTACATAAGTAATATAGAAATCTTATATCTATTATGAAATTTGATAACACTTAAGAATAATGGTCCATTAGTTAACGTTGTGTTAGTTAATGTATTTTTTTTCTTGTACAATATATTTATTACTTTTTTCAATTTGCATATCACAACAGATTACACAATTACAGAATAATAATCATGAAGACACAGCAAACTTTTTACCCCCCATTCTCCCTCCCAACAACCCAATTTATATAAATATATACAATTTATATAAACCAAATCAACAATTTATATAAATATAAATAAAAAAGGGATATGTTTAAATCAGGTAGAGAGTGTTTCCTGAGTCTGTTTAGACCATGATACTTCCCATATTCCTAAGCTTGTTCTTGTTGTAGTAAACTGTCAACACTTACATTGTACTTCAGGAAGTTTTTAAAAGGTCTCCAGATATCTTCAAACAAATTTAGTTTTTTTTTGACAATGTACGTGATTTTTTCCATTGACATATGTGATGCCATTTCTTTAATCTACTTCCTTTTCTAGGTTCATTTATATTTTAGTTAATGTATTTACTAACATTAACTAAGTAGGAATAATCTTGTAAACTATTTAATAATCATTATTCAACATTTATTAATGCATTATTAAAATGAACTGTGAGTTAACATGAACTAATGTTATGTAAGTAAATATACATTAACTAACTTTAACACGCATGAATAAATATTGTAATAAATGTGTTGCTAATAGTTTGTTTAAAATAAATACATCACCTGATAATAACTATTGGACCATTATTTCAAAATGTTACCTGAAATTATTGTGGAAATGATTTTATATTTATTTAACCCTTTGTTTAGTTAAAAAATAATGATTTAAATTTTTGTTATGGAGTTTGTTAGCTCTAGGTCTGGGACACGGTTAAACCAATGAAACATACTGTATACCTAAAAGGTATAAAACAGCAAAAATGAATTATACTATAAAGTCAGAATTATTAGCCCCCCTTTTTTTATATATATTTTCCAAATAATGTTTAACAGGGCAAGGAAATTTACAGTTATTACAGTATTACAGTACAGTAAATTACAGTATGTCTGATAATATTTTTTCTTCTGGAGAAAATTTTATTTGTTTTATTTCGGCTAGAATAAAAGCAGTTATTAATTTTTTTAAACACCATTTTAAGGACCATTTTAAATTATTAGCACTTTAAGCTATTTTTTTCAATAGTCTACAGAACAAACCATCATTATACAATAACTTGCCTAATTACCTTAACCTGCCTAGTTAACCTAATTAACTTAGTTAAGCTTTTAAATGTCACTTTAAGCTGTACAGAAGTGTCTAGTAAATATCTAGTAAAATATTATTTACTGTCATCATGGCAAAGATAAAATAAATCTGTTATTAGAAATGAGTTATTAAAACTATTATGTTTAGAAATGTGTTAAAAATAACTTCTGTCTGATAAACAGAAATTGAGGTAAAAATAATTCAGGGGGGCTAATAATTCTGACTGCAACTGTATATATGAGAAATGGCTTAATAAAAGTAAATCCCTGGAAAACAGAAGTGCAGACATTGAAGAGACACTCAAGTAAGACGCTGTCGAAGCGCGGTGGAAAAATAAAACTGCTTCAATAACAGATAGCGAGCTGCTTGATAGCTACTAACCAGTTTTTGTTTTCTTTAG
Seq C2 exon
GTCTTCATGATCTTCAGCAGCCAGACCTCACTATAGCAGAGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000023886:ENSDART00000027465:19
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
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]