DreINT0040140 @ danRer10
Intron Retention
Gene
ENSDARG00000099045 | cacnb2a
Description
calcium channel, voltage-dependent, beta 2a [Source:ZFIN;Acc:ZDB-GENE-080808-7]
Coordinates
chr7:71625259-71626613:-
Coord C1 exon
chr7:71626477-71626613
Coord A exon
chr7:71625336-71626476
Coord C2 exon
chr7:71625259-71625335
Length
1141 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTCT
5' ss Score
2.57
3' ss Seq
TTTGTTCATTTTGTTCACAGTAA
3' ss Score
7.09
Exon sequences
Seq C1 exon
AAATTTAATAACGACTGGTGGATCGGCCGCTTGGTGAAGGAAGGCTGCGACATCGGTTTCATCCCAAGTCCAGTGAAGCTGGAAAGCAGTCGCCTTCGCCAGGAGCAGCGCGCAAAACAAGGACGCTTTTACTCAAG
Seq A exon
GTGTCTGTTGCATAGATACTTCAAAACTACGACAAACAAACTAATACACAAAACTAATACACTCTGTGGGGGAAATAAGTATTGAACACGTCACCATTTTTCTCAGAAAATATATTTCTAAAGGTGCCCCAGATTTTCCCCGGATGTTGGTAACAACCAAATAAATCCTAATAAGAAAACTAATTAGTTTACAAATGAAGTTATGCATAATAAAATTAAATGGTGCAGAGAAAAAAAAACTGAACACATGAAGAAAGGGAGGTGTAGTTCAGCAGGGAAAGCCCAGACAGCAGCTGAAATCACTCGGTAGTTCTTCAGCAAGCCTCAGCCCTTCCAGTGTAAATGAAGATCAGCTGCTTCAGTCCAACATCTACATTAGCAGGAGGATGAAGATGAAGCCAGGGTGGACATTTCAGCAGGACAATGATCCAAAACACAGCCAAGGAGACTCTCAGATGCTTTCAGAGAAAGAAAATCAAGCTGTAGAATGGCCCACCCAATCACCTGATCCGAATCTAATTGAGAATACAGAATAAAGCTCAGATTTGATAGACGAGACCCACAGAAGCATCAAGATGTAGACACTCTGTTGAAGTCTGTGAGAAACTCACACCTGAGCAATGCATGAGGCTTCATCACCGAAGTCACCCCAAAATAAAAATGTACTCACACTCAGTAGGTTCCAACCCTTTATTATAATTTTTTTTTCTGACGATTACAAAAGATATTTTGAAAAATGTTAGGTACATCCGTATTAAAAAAAAAACTATGGAAGTCAATGGCAACCTTTTTGAGCAAAGAAACTCAAATATGTTTAGAAAAAGTTGATGGTCAGTAAATGATTTTTGGTTGAGCTATCCCTTTAAATCACAGGTGTCAAACTCAGTTCCTGGAGGGCCGCAGCTCTGCACAGTTTAGTTCCAACCCTAATTAAACACACCTGATCAAACTAATTGAGTCCTTTGTTTGAAACCTACAGGTAAGTGTGTTGGAGCAGGGTTGGAACTAAACTGTGCAGGGCTTCGGCCCTCCAGGAATTGAGTTTGACACCCCTGCTTTAAATCATATGAGTAGAGGAATATATACTCTACGCTTTCCTTTTTTTAAATTAAGGATTGTGTTTTGTTCATTTTGTTCACAG
Seq C2 exon
TAAATCAGGGGCAAACTCTTCATCCAGTTTAGGGGACATTGTTTCAAACTCACGGAAATCAACTCCTCCCTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099045:ENSDART00000168754:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.338 A=NA C2=0.764
Domain overlap (PFAM):
C1:
PF0001823=SH3_1=PD(43.1=47.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATTTAATAACGACTGGTGGATCGG
R:
CTGAGGAGGGAGGAGTTGATT
Band lengths:
214-1355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]