HsaINT0027549 @ hg19
Intron Retention
Gene
ENSG00000135773 | CAPN9
Description
calpain 9 [Source:HGNC Symbol;Acc:1486]
Coordinates
chr1:230907760-230910377:+
Coord C1 exon
chr1:230907760-230907845
Coord A exon
chr1:230907846-230910299
Coord C2 exon
chr1:230910300-230910377
Length
2454 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CCAATTTTGTTTACTCCTAGTTC
3' ss Score
5.96
Exon sequences
Seq C1 exon
GTAAGCTTCCGAGGCCAGAGAATCGAGCTCATCCGAATCCGGAACCCTTGGGGCCAGGTTGAGTGGAACGGGTCGTGGAGCGACAG
Seq A exon
GTCAGTCACCCTATCCTGCCTCTCTGGCTGGTTCCCGGGGCGTGTGGGGCCAGAGCTGGCTTGTGCAGACATGTGAAGGAGTGGCCTGTCTACTATCCTCCCGGGCTCTGACTCAGGATCCTGTCCCGATTCTGAGGTGCCCCTTCTTCCTCCCCTTTCAGCCCTCAGGCCCACCTTGCATCAAGGTTGATTCTCAAGAAAGACTTTTACAACAGCACTCTAACTTTCACGAATTGTATTTATGTCAATACATAAATGTGTTACCTCCCATGGTGATGTTTATAACCCAGTGATATGGTGAAAAGCTTTATCTGTAGTTGTGAGTAACTCCAGTAAGCAGTGTGCATATGCATAAGTGCGTGTGTGTTTGTGTGTGTGTGTGTATTTGGAGTGTCGGAATCCCTGAAATATTACCTAGCATGTAACTATAGGATTCTCTCTGATGGTCACTGACCATGGCAGAGGCCCAATAGCCCAGCAGAGAAATAGAAGTGAGGCTGAGCATGGTGGCTCATGCCTATAATTCCAACACGTCAGCAAGCCGAGGTGGGAGGATCACTTGAGTATGAGAGATTGAGGCTGCAGGGAGCTATGATTGCACCACTGCATTCCAGCCTGGGCAACAGAGCATGTTGACCCCATCTCTTTTTTTTTTTTTTTTTTAAAGGAAAAAAAATAGAGGACATGGAATTGGAATTTTATCTATTACAGAGCTGTTAACCAGAGTTTTGGCCCCCAGTTATCAAGAAAGGTCTGCCTTTTCTGTGTGTGTCCCCACAGCTCCTCCAGCTCTGGTCCCTTGGGAAGTGGACCAGGTGACTAAGAACCAGGGATGTTTGTGTGGGTGCGTGGCAGGGCCTGCCTGAAGCTGTTGCTCGTCCGCTGCTTGTTGGGCTCCTGAAGCCCTTTCCTGCCACATCCATGGCCCCTGAGCTTCTGGGGAAATCTGAAGCTAGTCTAGAACTTGGTTAAAACTGAGCCAGTGTTTGTCTTCAGTCCAGACACAGCTACCAGGTCGCCAGACATGGTGCAGCCGCTGCTGTATTAGCCAGACCCCAGCGTGAGGGCAGGGCACACAGGCCTGTGCTTTCCAGGCTGTCATTGTCCCCATGGAGGCTCTCGTCCCACCATCCTCTGCTCTGGCCTTGGCTGCCGCCTTCTGAGAACCAAGAAGCATTGGCAGAGATGAGCTGAGATGGGTTGAGGAGGAAAGAGATTGGCCTCCCTCTCCTGGCAGAAATGGAAAGCACAGAGAACTACTGAAACCAAAATTAGTGAGACTGCGTCACGTTGTAAGATGTGCAGTGCCCCTCAACTTTGAGATCGTAGCCTATAAAGGGAAAATGGGCCATTGTCTCCCATTTTCTGGGACTCACAGAGGTAGAAATCAAGAAAGTGACTGAGAGCCAAGGCTGGAATAAAATTTGTCTTCCACTCATGCAGCCTCCATGGGTGATGGGAGGGGCAGGCGCCATCCCGACTCCCTGACTTCGCTGTGCTGCTGGTGACATGTGAGTAGGGTTGAAGGCACCGCATGGCCAGCCTGTCAGGCCAATTATCTGGGTGTGAGCCACTTAGGATAATGGCTCCAAAAGAAAATAATGGCTGCCAGTTCCACTCTTCTGACCCTGGCCCGAGCACCTGGAGACAGGTCCCGGCTGATCCTCCCCTTGGATCACCTGAGCACTCCCCTGAGGTTGAGTTGAGATCACAGGATGAGAGGGAGCTGCCACGTTGGCTGTAGCACCGCAACAGTGGTGACCTACTTTGAACTATTTGGAGGCGGCTGTGGGAGTCACAGAAAATGCAATGAACTTGGAGTCACAAATCCTGAGTTTGGAGAGTGACAGGCAGCCATTCCTACCCCTACTCTTCCCTGAGAGTGTTTCCATGGGCCTACCTGAGCCCTCTTATCTGCAGGACGGGCACACCTAGCTCACAGAACCCCACCTGGCTTGCCAGCGAGGTCACATACAAAAGGTGCCGGGTACAGACAACATCAAGCATGGGCAGGTGTAAGGCATTATCACCTTTCCAAGTGTCAGCTTGTCCATTAAGGAAGGGCCAAGTACTGCTCCAGGTCACATGGCAAGTTGGAGGCCAAGCACGAAAGTCAGCAGACTTGTGGCTTCCAGCCGGGCTCTTCTGCTACCCCACGGGCATGCAATGCCTTGTGACTATCCCAAGATAATCTTCCATGTCGGTGGTTCAGATCATCCTCAGGGGTATTTTATCCATCAGCAACACTTGGAGATGTACTTTCTGACCAGCCCTCTTATTTGGGGGCCAGTGGCTCACCTGCCGCTACATCCCTGGGTGCATTTTTGGGACCCAGTGAGTAGTTACTAAGCAGGTCTTATTTCCTCCATAACCGCACACTGTGGGTTCCACATCAAGGCCATTGTTGCTCTTCATCATGACCTCTGCCTGAACACCAATTTTGTTTACTCCTAG
Seq C2 exon
TTCTCCGGAGTGGCGTTCTGTTGGTCCAGCTGAGCAGAAGCGTCTGTGTCACACTGCTCTGGATGATGGGGAATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135773-CAPN9:NM_006615:7
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.123
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(11.1=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(12.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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]
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)