DreINT0040186 @ danRer10
Intron Retention
Gene
ENSDARG00000009738 | cacnb4a
Description
calcium channel, voltage-dependent, beta 4a subunit [Source:ZFIN;Acc:ZDB-GENE-080320-2]
Coordinates
chr9:38301813-38305370:+
Coord C1 exon
chr9:38301813-38301935
Coord A exon
chr9:38301936-38305242
Coord C2 exon
chr9:38305243-38305370
Length
3307 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTT
5' ss Score
7.63
3' ss Seq
TTGTCTATTTATTTTAATAGAAG
3' ss Score
5.8
Exon sequences
Seq C1 exon
GCCAAAGCGGTGGCCTTTGCTGTGAGGACAAACGTCAGCTACTGCGGTGCCCTGGATGAAGATGTTCCTGTCGCTGGCACAGCCATTTCTTTTGATGCTAAAGATTTTCTTCACATCAAGGAG
Seq A exon
GTATTTAAAGTGATAGTTAAAAAAATTATTATTTACTCACTTTCAAGTGGTTCCAAACCTTTATGAGTATCTTTATTCTTATAAAGAAGATATTTAGAAGAATGTTAGAAACCTGTAACCAATTGACTTCCATTGTAGGAAAAACAAATACTATGGAAGTCAATGGTTTTAGATTTCTTCAAAATATCTTCCTTGTGTTCAGCAGAAGGAAGAAAGTCAAACAGGTTTGAAACAACTTAAAGATGAGTAATTAATGAGTGGATTTTCCGTTTCGGGTGAACTATCCCTTTAATAATAAGCTGTCTCCACTTATAGAAAATATATATCCTCGATTCTGAAACAGTTTTGTATATTAATGTAATGAAGATTCTGTGATTTGTTCATTGCCTTTAACTTTATTTAATTAACAAAAGTACAAGAGATAATTTCCTGTTTTTCTAGTTATAAATTCTAAACATATTTTGTACATATAAACAACACATAAGAGGCAGCACGGTGGCTCAGTGGTTAGCACTCTCGCCCCGGCGGATGATCTAACAGGGTTGTGCTTATTCTGTTAATGAGTTATGGGTGTGTTTTGAGCATAAACCAATCAGAGTTTCTGATCTTCCATTCCCTTTAAGAGTTAGTTGAGTCACACCATGACGTCTTTGCTATAAACATGGCGTACTATGTAAGTGGAAAAAGTGAATGGAAAAGCTGAATGCTTGACTAGCGAGAAAACTGTTAAACAAACCTTCTGCGCAAGGATAAAGAATGAGCCTCCTCCATTCGGCCTCTTTACTTCTAACTCTTTACTTTACTTTACTTTTGAAGATATGTCTCAAAACTATTTCTAAATTCAGTTCTAATTTCCAGCAAGCAAATAAATTAACCATAATAGCAAAGTGTGGTCAAAAAACTGAGTTATATCACACGTCCTATTCTTATGCCCCATATGGTCATGCATATGTCTCCAAAACCCAAGAGGTGGACAAATATAAACTTACTTTTATTAAAACAAATATAAATATGCAAATAATAAATAATACTGCTAATAATAACACCATTATAAAAAAAATACAAATTGTCATGAATAAACTGAAAAAAGCCCCCCAGACATTAAGATGGCATGAAGCTAGTGTTTTCATGTTCAAACAGGTTGTGTGCTGGGTGCGATTCATCCAGAGTGATTTTGCGAGCCCTATTACTCACTCTGGAAGAGTACAGTTCTTGAAGTGTAGGAAGGGTAGTGCCAGTGATTCGTTCAGCAGTCCGAACTGTTCGCTGTAGTCTTCAGAGGTCGGTTTTGGCAGCTGAGCCAAACCAGACGGTGATTGAAGTACAGAGGATGAATTGGATGCGGTAGAGTAGAACTGTACGAGCAGCTCCTGTGGCAGGGTTAACTTCCTCAGCTGACGAAGGAAGTACAGTCTCTGCTGGGCTTTCTTCCCAATAGAGTCTATGTGAATCTCCCACATCAGATCCTGAGAGATGGTTGTGCCTAGGAACCTGAATGCCTCTACTGCAGCCACAGAGCTGTTCATGATGGTGAGTGGGGGTAGTGCAGGGGGGTTTCTCTCTAAAGTCCACTATCATCTCCACTGTTTTAAGCGTGTTCATCTCCAGGTTGTTGTATCTGCACCATAAAGCCAGCCGCTCCACCTTCTGTCTGTATGCAGACTCGTCACTGTTCCGGATGAGGCCGATAACAGTAGTGTCTTCTGCAAACTTCAGGAGCTTGATGGAGGGGTCTTTTGCAGTGCAGTCGTTGGTGTACAGGGAGAAGAGCAGTGGGGAGAGAATGCATCCCTGGGGGGCACCAGTGCTGATGGTGCGGCTGTCAGATGTGATTTTTTTCCATTCTGACTAGCTGTTGTCTATCTGTCAGAAAGCTGGTGATCCATTGACAGACAGCTAGGAACAGTGAGCTGGGTCAGTTTGTACTCGAGTAGTGATGGGACGATGGTGTTAAAGGCCGAACTGAAGTCCACAAGCAGAATCCTTGCGTAGTTCCCTGGTTTATCCTGATGTTGTTGGGTATAATGCAGTCCCATGTTGACTGCGTCATCCACAGACTGGTTTGCTCTATAGGCAAACTGTAGGAGGTCAAGCAGGGGTCCAGTGATGTCCTTCAGATATGCTAGCACCAGTCTTTCGATTTACTTTATGGCCAAAGTTGTTAAGGCAAGAGGTCTGTAGTCATTGAGTCCTGTGATCTTTGGCTTCTTCGGGATTGGGATGATAGTGAAGCGCTTAAAGCAGGATGGAAAAGCTGCGCTGTTCCAGTGATCTGTTGAAGATCTGTGAGAAAATGGGAGCCAGCTGGTCAGCGCAGGTTCTCAGACAGGTTGGTAAAACACCGTCTGGGCCTAGTGCTTTCCTTTTCTTTTGTTTACTGAAGATCTGACGCACACTATCCTCACTGATCTGAAGTTCAGAGGGGAGAGGAAGATGGCTGGAGGTGTTGATGGCTGTGTGAGGAGATGGTTCGGTCTTTGTTGATGTGGTTGATGTGGTGTTGATGGCTTCAGTTGAGGATTCAGATGAAGGTTATATAAATACAAAGTTGTGTCATGAAACTCTATTGGGTGCACAGGCTGATAAGTCATATCCAATCTGCTGCAAACTACAAAGCTCTAATGATTGGCTAGTGCCATCATCTGAGCGTCCTCCTCAACAATGAGTGCCCTCCTTAACATTGTTTTCAGAAACCCTCCTCCACCTCAGTTCAACCTGTTTATATATCTGCTCTGGGGGTTTATGTATGTTTGCAGCAACAGTGTGTTATATTCTCAGACAGCACATCTGTGAATATATTAGCAGTTGCAAGTCTCTGTCCTTGATGTGAACCAAAAATCAAAGCAGCAGCACCATTTCAGACCAATTCCTTATTATCCTAAATTTCTCTGAGCGATATCACACCTTTTCTTTCTAAATCATATAGCCAATATGTGGTTTTGTTATGATCATCGGCGATCTACAACCTGAGATCACTAAAACACTCCCTTTCACATGAACTACAAATGCACCATGTTATGGACTACATATTCAGGCTTGCACACACACACACACACACATCTGCTCCAATATTGTTAGACCTGTAGGTGGAAGCATTTTATGTCACTGAAAAATTAATTCAATATATTCTTCAAAAATGCTGATTCATCTAAACTGATTTTTAAAATAGTAATGTAATAATAATAGAAAGTGTTGCAACAAATTAGATTATGTGGTGGAATTGTGATTTCTATTTTAAACAGAAAAATGTGACTCCGTTTATCTACAATCTAGCAGATTTAACACGTTTGTCTATTTATTTTAATAG
Seq C2 exon
AAGTACAACAACGACTGGTGGATCGGCCGACTGGTGAAGGAAGGTTGTGACATCGGATTCATTCCCAGTCCCTTAAAACTGGAAAACATTCGCTTACAGCAAGACCAAAAAAGAGGCCGTTTCCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009738:ENSDART00000123749:3
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=0.209
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PD(2.4=2.4),PF0001823=SH3_1=PU(42.9=43.9)
A:
NA
C2:
PF0001823=SH3_1=PD(52.4=51.2)
Main Inclusion Isoform:
NA
Other Inclusion 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]