GgaINT0097896 @ galGal4
Intron Retention
Gene
ENSGALG00000008591 | CACNB2
Description
calcium channel, voltage-dependent, beta 2 subunit [Source:HGNC Symbol;Acc:HGNC:1402]
Coordinates
chr2:19009040-19010586:-
Coord C1 exon
chr2:19010491-19010586
Coord A exon
chr2:19009226-19010490
Coord C2 exon
chr2:19009040-19009225
Length
1265 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
TAAACCTTTTCCTTTATCAGGAA
3' ss Score
9.27
Exon sequences
Seq C1 exon
GTTTTACAGAGGTTAATAAAATCTCGAGGGAAATCTCAGGCCAAACACCTTAATGTTCAGATGGTGGCAGCTGATAAACTGGCACAGTGTCCTCCC
Seq A exon
GTGAGTTAATGTTGATTTGTGTTATGTTTGGCCAAAAAGAGATGTTTCTTGTATAAAGATGCCCTTCCTGTCAAGCAAGTTAGTTATGTAATTGCTAGGACTATTTGCTCCCTTCTGGGCATATTTCACTGCTTTTTTGCAGAATGCCTCCTGAGGTCTCTGGACTCTTCAGAAGGATACAGGGGAAAAACGCTCCTTGTCACAAATATTTATTAGGATGTGTGCTGAATACATGCACTGCTTGAACAAAATGAGTGTTTGTTTTGCTTGATATATTTTTGAGTTGTTGATCTAAAAATGAACTCCTGATGACAGTGCAGTTTAAGGTACAGAAGGTGACTTGAGTAGCTCTCTTCCAGCATATGTCACCACAGTCCATCACTGCTTACATTCTTGGTCACAATTTTGGCAAAGAGCTGTGGTGTTCCACATAGCTGAGAACTCTGTGTTTTTTCTATTGATGTGCACGTAAGCCATGTGTAAGATGTGGCAAGCAGTGTTACCAGCAAACTCAGCATCCAGGAGTGTGGTCAGATCCCAGAAGACAAATGTTCAGTTTAATTACAGATGTGGAAATTTGCCATAGTTAAGAAGCTGAGTGAGGGAAATGTTTTCATCGTTGAAGTTCAAGCATCTCAACTACAATACTAGTTTCTCAGCTCCTCAGGAAGTCAATGAACAATGCTAGAAGCCTCCATGGGCTTTCAGAGTTGCCTTCAGGAGGACGTCTAACTCCCTGACCAGAGAAGAAATTCTCCCCCTGAATTTAGATTCCTGTGACTAATCTTTTGCCTAGTATTTATATTAAACTTGGAAGTTTTGTGTTCTTTATTACTCTTGCTTATCACTGTTATAAGTTATTTATCTTAGTTTATCTTAATTTTGACTGAGTCGTTCTATGGATGAATGATGGATTCTTTCTTACAGTTCCATTTTGTTCCAGTAGCTAAGAAACTTTAATATTTAACCTTTCTTTCTGAATATTTGAGTTTTAAAATTTCTTCAAGCTGCTTATTCTCACCCTCATTGACTGCTGATGCATTACTAAGTGGAATTCATGAGGGCTTGACTTGGCAAATGTAACATCAGCAATTATAAGTGCTGTCCTTTGTATTACTTGCAAGGAAAAAAAAAAGGTGAAATATTTTAATACAATTATTATAAATGTGGTTCATTTTTGATGAATGCAAAGTGTAGTCATCAATGTCACTAGCTGATCTCCCTTGAGCTTGTGGTTATCCTCACTAAACCTTTTCCTTTATCAG
Seq C2 exon
GAAATGTTCGATGTAATTCTTGATGAGAACCAGCTGGAAGATGCTTGTGAGCACCTTGCTGACTATCTGGAAGCCTACTGGAAGGCCACACATCCGCCTAGCAGCAATCCTCCTAACCAGCTTCTCACTCGGACACTTGCAACAGCCACTCTTCCTATTAGCCCAGGTCCAAATATTAACTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008591:ENSGALT00000013988:11
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=0.468
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(17.1=100)
A:
NA
C2:
PF0062516=Guanylate_kin=PD(13.8=40.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGTTAATAAAATCTCGAGGGAAAT
R:
AAGTTAATATTTGGACCTGGGCT
Band lengths:
270-1535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]