HsaINT0026554 @ hg19
Intron Retention
Gene
ENSG00000067191 | CACNB1
Description
calcium channel, voltage-dependent, beta 1 subunit [Source:HGNC Symbol;Acc:1401]
Coordinates
chr17:37341037-37342357:-
Coord C1 exon
chr17:37342203-37342357
Coord A exon
chr17:37341118-37342202
Coord C2 exon
chr17:37341037-37341117
Length
1085 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
CTCCCTGCTTCCCCCCCCAGACA
3' ss Score
11.48
Exon sequences
Seq C1 exon
GTAATGAAATGACTAACTTAGCCTTTGAACTAGACCCCCTAGAGTTAGAGGAGGAAGAGGCTGAGCTTGGTGAGCAGAGTGGCTCTGCCAAGACTAGTGTTAGCAGTGTCACCACCCCGCCACCCCATGGCAAACGCATCCCCTTCTTTAAGAAG
Seq A exon
GTAATTCTCGCTGTGTTCTTGCAAGAGGTGGGGGAGTCAGGGCCAGCACTTTGGTGGAGGGAAGGGGGCTGTAATGGATTCAGATGTGGTACCAACCTGTTCTGTGGGCATCAGGGCTTCCTGCTGAGGTGGAGGGAAGGGTAGCATGGGCACATCCCCCTCCACACACAACTCCACCCTGGCCCGATCTCCAGGAAGGAGATCTTGCCCTTGGAAGGTTGCCCCCACACCTGGGGCAGCAGGGTTTGGTGGTCATGAACCCTGACCTCTCCCCTCACTCCCAGGGGCCTGCTCTGGTGTTGGTGTCTACCTTGGCATGTGAAGCAGGACATGGGATGGCATTCCTTCTTTGCCCTTTTTTGACTCTCTGGGTGGGCACATAGTGGGGGGGGGCTGCTGGCTGCAAAGCAAGACAGTTAAGGGAACCCCTAAAATGGGCATGTTGGCATGCACTGGGGGCAGGAGATGGGCAACAAGATAGGGGCTGTCACCCTCTCCAGCTCTTTTCCAAGACCCAGAAGAGGGTAGGATATGTCTGAATATTCCCACATCCACTGGACTGACTGTCAGTCCTGCTCCCAGCCCTGATCCAGGGCCACCTCTGGCTCCCCCTTGGCGTGGGGTCCCGTTCCCCGTCTCTGGCTCTGTCTGTCACTAACACGCATGCCCTGTTATCTCTCCTCGTCTGCCCGGCTCTCCCTCCCTCTCTTGTCCTGGCTCCTGCCTTGCCCTCTGCCCCTGCCTGGGTCCCCTTCCCTCTCTCCTCCCCCTTCCCTCTCTTGGCAATCTCTGGACCCAGCCAAACAGAAGCAGAAGTCGGTGAGTATCACAGCTTTCTGTGTCCTCCTCCCCACTCCCTGGGATGAGCTAGGGGGACCTTCTAACACCCATTCCCACATCTGTCCCCCATTTCCCCCACCCTTCCTGGTTCTCCCTGGCCATCCCTCCCCACCCCCACCCTGATCCCTACATCTGGGCTCTGGGACCAGGGTGGGGGAAGGCTGCATGGGGGAGCCTGGAGTCTGGGGGAGAGGATCTAATGTCATCTCCACTCTGGGGTTTCCCCTCCCTGCTTCCCCCCCCAG
Seq C2 exon
ACAGAGCATGTGCCCCCCTATGACGTGGTGCCTTCCATGAGGCCCATCATCCTGGTGGGACCGTCGCTCAAGGGCTACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000067191-CACNB1:NM_199247:7
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.846 A=NA C2=0.167
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062516=Guanylate_kin=PU(12.0=55.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAATGACTAACTTAGCCTTTGAAC
R:
CTCGTAGCCCTTGAGCGAC
Band lengths:
232-1317
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)