DreINT0040128 @ danRer10
Intron Retention
Gene
ENSDARG00000002167 | cacnb1
Description
calcium channel, voltage-dependent, beta 1 subunit [Source:ZFIN;Acc:ZDB-GENE-040718-399]
Coordinates
chr3:16011678-16015173:-
Coord C1 exon
chr3:16015078-16015173
Coord A exon
chr3:16012000-16015077
Coord C2 exon
chr3:16011678-16011999
Length
3078 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TTTTATATCTTCTTTTCCAGGAG
3' ss Score
11.63
Exon sequences
Seq C1 exon
GTGTTGCAGAGGCTGATAAAGTCCAGGGGAAAATCTCAGGCCAAACATCTCAATGTCCAAATGGTGGCAGCTGATAAACTGGCACAATGTCCTCCT
Seq A exon
GTGAGTATATGACTGGCTCGTCATTTGCATTCGCTACATTTCCATGGTCAAAAATCGAGTATGTTAGTGTGTGCCAAGCCACAGCACATTTCCGCTGTCACTTCTTAATGGGGCCTCATCTGGAATACCTCAGGGCTAATGGCCACAGGTTTTGGACTCACCGAATGCCTTGGCTCATAGCTGGCCAGCTGGGACCAGAGGAGTGCTCATGAATAAAGACAATGGTAAATCTGGTTAGGAGAGGGTTAGCAGCGCTGCTTAATTACTACGTTATCATATCAGATTACCAGCTAACCTTAGCATAAAGGTCATTCCAGTAGCAATATTAAAGTGGCATATGTCAGCTGACACAGAACCTTTTTCAACTGGCTACACAGAAAGCAACGCTTACAAGAGATATTAAGGTTTGCCAGATTTCTCACCAGCAGCTGACATCACTGCCCAAACATCAGCTCAAACTTGTCGGTGTGAAGTCTTTCAGAAGCTGTTCATTTATATGTTCACTTTTTTTACAGTATCTATTATGAATGCAGCACTTTTTTTTAATCATCATACAAGACGTTCTTTCAAATTCATATGAAATCAATATATACAATGTTTATTTTGCTAGCTCACATATTCTTAGGATGAGTTATTCATTCTTGCAAGTTAATCTACTGGGAAAAAAAGAAGTGGAGTGGCTGTTGGAGTGACTTTGGAGAGTAACTGTTCTTCTCTGATAACAGCTTCCACTGCAATATTTCTTAACCACGCCCCTTTTTATTGTTAGTTTGCTATGAGTGAATGTTGCATCATAGGAAAGCCCTGCCCCTAGTCAATGTTACGTCTCAGTTGGAAGTACATCAACAAACTGAAATAAAAGTCTCATTGACTTCCGGTTAGACTTAGAGTGGAGGAACTATGACGTCAATTTGTATGCAAAAACCCGGAAGCAAGTTAGCATTTTAGCAGTTCCGGTTCCCTCGTCCCAAAGTCAATGGGTTTTTTCAATGGGGTTTTAGTAAAATCGCTTAAATAAGGTTTGTGGCAAACACAAACTCAAGATACTTTCTCGTTTTGTTCTACGACATAAAACGCATCAGTTACATCACACTCTTGAGTTTTTAAATCGGTTATGCTTCTTTAAAAAGACGATTGCTATCAAGTTGCTAAATGCTATTTAGGTATTTTCATGAACATTATTTTATAGTTTGTTGTATTATTCTAATTGAGAATTCAGATTGTGTGTAGATAATTCCTTTACTTGTAAAGTCTGTCGAGAAAGATTCATTTGTTGATCATTTATTTTAATAAACTATATTATGAAGACACTGCTTACCAGTGCAGCCTGTCTCTCTCCTGCTCTCAGTAATGCAAACGTAGGAATAAATGTGTCAAATACATGCATGTAAACTGACAGTTTAACGTGATTTTTCGTTCTTCATCTGAACACATTTAACTCTCATAACTGCAATATTTGCACTCCTCCATAAAATGTACAGCAGATGTGACTGTATGGGCTGCTTTTAGCTGTACTTAGTGACACAAAAGGAATATTGAATGTTGCTCTGTGTCCGTAATGATGGAACTTGCAGGCATTTGATAGACTTGTTCCGCCTAATTTCTGTCATCTGTTAAGGTAAGCAGACTGTGTGCACGCGAGCGGTACACTTATTTAAATATGTCTTATGATAATACTATGTAACGTTAGGCAAAACTTTTAGAACAACCATAAAGCAAAACAGATGTATTTCCCACATAAAAACGATCCGAAAGGCACATATGTCTATGTGTTTTTGCGTATTTATTTGTTTATAATATAGAGCGTGGATTATAATATAGTAAACAGAGAAATTAACTCTTTTTCATGGACATTATTTCTAAAAATAAGCTTGAAAAGTCGTCTGTAGCAGGGTGGGGCTGACCTCACAGGCGGGCGCCCCGAGGGCTCTGTAGTCTGTTTATAGCCTAATGTTAGCTTTTCAATTCCTGCGTTTGTATTTAAGATCCAAAAGTGCTCAAAGTTGTATTTTCGTGTGAGGATTATCCAACTGGACAAAACGTGCAAGTGTAATGAACAGTGTTTGAACACAGAGCTTATTATTTGCAATCTTCGAAAGCCCATAGGGATTTTCACGAGGGAACCAGTTTTATGCTAGCAGCTGATTAGCCTAAAAAGTGATGTCATAGTTCCTCCACTCTATTATGGATTTTTGAAAATGACCTTCCATGCAGTGTGTAACGCAGCTCTAAGAAAAGTGAAATATCCAGCTAAGGCTTAAATCTGAAAGCCCACCGTGTTTAAAACTATTGATTCATCTATAAAAAAGTCGACTCATAGTGGTTAGCTGTTGGTAAAGTAAGGATCAGAAAAGACTATATGGGACTTTTTCTGAGCTTAACAGGAACTTTACAGTACACAGTTCATAGATCAGTTTCTTCCTCTATTTCACAAGTGCAAGTAAATTAAGTTCGATTAAAATGGTTGCTTCCTGTTTTGTTACTTGTAACCACTTTTACTGTATTTGGTTAACTTTTTATATTGATGTATCGCATCCAAGCCACGTTGAAAACACAACGCACTTTGTTTATGGATATAAATGCAAATGTGACCTCGCGATCTACTGCCGTTTTGGGGAGGGGGGAGGGCGGAAGGTGTTAGGTTCAGGGGTAAGGTGCCTGAATAACATTGTTGAGAACCGGGTACTGTGTACTGTGGTGTTAGTAACTGTACGATGAAGCGTGTTTCGGGTAGATGCTGAGATCGGATCCTATACCAAAGTTGGCGACCCATGGGTTTCACAGACTGTACCAAAATGCTGAGGACAGGGGGGTTCATGCAGTCGAACAATAGACAGGGTCATCTGACCAATCAGCGCAGATTAGCACCGCACTAAGGAGGGGTTTAGGAACAAATGACTAGGTTAAAATAAATGCATATTATGAGACAATGAAAGTGTTTTTTGACCTGGCATGCATATCAGCCTGTTGTTGGAGACCCCCAAAACCCTTGACCCTTTTTAATGCATAATAGAGGCTCTTTAAATGGCGATGTAAACTACATTTTCTCACCCTTTTTTTTTATATCTTCTTTTCCAG
Seq C2 exon
GAGCTGTTTGACATAATCTTAGATGAGAATCAGCTGGAGGATGCGTGTGAACATCTGGCTGAATACCTGGAAGCTTACTGGAAGGCCACACATCCACCAAGCAGCAACCCGCCCAACCCTCTGCTGAACCGCACCATGGCCACAGCCGCCCTGGCCGCTTCGCCCGAACCCGTCTCCAACCTGCAGGTACAGGTGCTCACTTCCCTGCGGCGCAACATGGAGCTCCTCGACGGCTCCCCCGCTGTGATGCAGGGCCAACAAGAGGACGAACATGCCCTCTAAGACACATAATAAAGGGTCCCAGACCCGTCTCCCAATCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002167:ENSDART00000111707:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.425
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(16.8=100)
A:
NA
C2:
PF0062516=Guanylate_kin=PD(13.8=26.6),PF068127=ImpA-rel_N=WD(100=29.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
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]