GgaINT0045682 @ galGal4
Intron Retention
Gene
ENSGALG00000012511 | CACNB4
Description
voltage-dependent L-type calcium channel subunit beta-4 isoform c [Source:RefSeq peptide;Acc:NP_989675]
Coordinates
chr7:34840864-34843477:-
Coord C1 exon
chr7:34843368-34843477
Coord A exon
chr7:34841016-34843367
Coord C2 exon
chr7:34840864-34841015
Length
2352 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
GCCTTGTTTTCCTCCTCTAGCTG
3' ss Score
10.54
Exon sequences
Seq C1 exon
GATATCAATAACCCGAGTGACAGCCGACATTTCTCTTGCTAAGAGGTCTGTTCTGAATAACCCAAGCAAGAGGGCAATAATTGAACGGTCAAACACACGATCCAGTTTAG
Seq A exon
GTAAGACATGGACATGGACACAGCTGTAGCTCTGAACGTGGCTGCATACTGCAGGAGAGTGGCAGCACTGTCACCAGTTCTGCAGTTCTGAATGCATCTACAGCGTTTTATTGTGTAATTCTGTATTTCATGTCCCCTGATGGGTGATGGAATTTGCCTGACAGAGGAGTGGCACAGAGCACAGTGTGCTGAGTTAGCATCCCGTGGAGCAATGCCTGGGCTGGAGCAAGCAGGCTTACAGCTATTGTAACTATTCAGCCTGTGCTGACTTTATCAATTTAAACGTACTCACATGCATGGGCATGGTTGAGAAAGGTCAGATTCATCATCTTCCTTCTACTTGTGATGTGTTCTTTCTTGTTACTTCAGACAAAAGTGCTTTGGTGTGAACATTGCCATTGGTATCCTTGTAAATAATATCCTGACAGTATTCATCATAAACAGATCCCTGTGCTTTTGGGATTGTGTGGTCACAGTTCTGCTTCTCATATGGATTCTTGTTAAATCAGAGCTACAATTTGCAAACAAAAAAAGTCCTAAGAAGTATAAATATATCACTGTTAAAAATAACTATCTTATGACTCCTGAGATATTTTGCAGATCTGAAAAATATGCCTGAGCTTATTTTGGGTTAATCATAGAATCGTAGAATCGCTAAAGTTGGAAAAGACCCACAGGATCATCCAGTCCAACCATTCGCCCATCACCAATGGTTCTTGCTAAACCATGTCCCTCAACACAACATCCAAACGCTCTTTGAACACCCCCAGGCTCGGTGACTCCACCACCTCTCTGGGCAGCCCATTGCAGTGCCTGACCACCCTTTCAGACAAGTAGTATTTCCTAATGTCCAGCCTGAATCTTCCCTGGCACAGCTTGAAGCCATTCCCTCTCGTCCTATCACTAGTCACCCGAGAGAAGAGGCTGACCTCCAGCTCACTACAACCTCCCTTCAGGTAGTTATAGAGAGCAATAAGGTCTCCCCTGAGCCTCCTCTTCTCTAGACTGAACAATCCCAGCTCCTTCAGCTGCTCCTCATAAGGCCTGTGCTGCAGACCCCTCACCAGCTTTGTTGCCCTCCTCTGGACACGCTCCAGGGCCTCGATGTCTTTCTTACAGTGAGGGGCCCAAAACTGGACACAGTACTCGAGGTGCGGCCTCACCAGTGCTGAGTACAGGGGGACAATTACTTCCCTGTTCCTGCTGGCCACACTATTTCTGATAGAAGCCAGGATGCCATTGGCTTTCTTGGCCACCTGGGCACACTGCTGGCAGTGTTCAGTCTAGCATCAGTCAACACCCCCAGGTCCATTTCCTCTACAGAGTCTTCCAGCCACTCTGCCCCAAGCCTGTAGCGTTGCCTGGGGTTATTGTGGCCGAAGTGCAGGACCCAGCATTTGGTCTTGTTGAATCCCATCCCATTGGCTTCAGCCCAGCTATCCAACCTATCCAGATCCCTCTGTAGGGCCTCGCTACCCCCAGGCAGATGGACACTTCCAGCCAGCTTGGCGTCATCTGCAAACTTACTGAGGGTGCACTCAATACCCTCATCCAGGTCATCAATAAAGATATTAAAGAGGACAGGCCCCAGCACCGACCCCTGGGGAACACCACTCATGACCGGTCGCCAGCTGGATTTAACTCCATTCACCACCACTCTATGGGCCCAGCCCTCCAGACAGTTCCTTACCCAGCCAAGAGTGTATCTGTCCAAGCCACGGACTGCCAGTTTCTGCAGGAGACTACTGTGGGAGACAGTGTCAAAAGCTTTGAAGTCTAGGTAGACCACATCAACAGCCTTTCCCTCACGCACCAGACGGGTCACTAGACCATAGAAGGAGATCAGGTTGGTCAAGCAGGACCTGCCCTTCGTGAACCCATGCTGGCTAGGCCTGATCCCCCGCTTGTCCCACACGTGCCATGTGATCTCCCTCAAGACAAGCTGCTCTGTAATCTTCCCCGGCACCAAGGTCAGGCTATAGACCTGTTAAATAAAAACATACGTTTAGTTGTAATGTGTATGCAATATTTTCAGACAACGGAATTGCCTCAAAGGTAACATTAATTTAAAAAGTCCTTGAGTAGTAGATGATTGTGTGGAAATTACATGAATTCACATGTGCAGTTCATCTACTGAATGTATAGAGTTCATGAAACTGAATGGGTGATGGTATTTTCCATGTGGCTCTGGGCAGCCTGGTCTGGTGGTTGGTGACCCTGCACATAGCAGGGGGTTGAAACTGGATGAGCACTGTGGTCCTTTTCAACCCAGGCCATTCTGTGATTCTGTGGTTTTTGTTTAAGTAGCACCGGGGTTGAATGGCTTTCAATTGCCTTGTTTTCCTCCTCTAG
Seq C2 exon
CTGAAGTGCAGAGTGAGATTGAAAGAATCTTTGAGCTGGCCCGGTCCTTGCAGCTGGTTGTCCTGGATGCAGACACTATCAATCACCCCGCACAACTTATCAAGACATCTCTAGCACCAATTATTGTCCACGTTAAAGTGTCTTCTCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012511:ENSGALT00000020437:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.177 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(20.4=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(27.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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]