RnoINT0029001 @ rn6
Intron Retention
Gene
ENSRNOG00000020389 | Capn12
Description
calpain 12 [Source:RGD Symbol;Acc:1307341]
Coordinates
chr1:87071181-87072394:+
Coord C1 exon
chr1:87071181-87071255
Coord A exon
chr1:87071256-87072230
Coord C2 exon
chr1:87072231-87072394
Length
975 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTTCATGGTTGGTTTTTCAGGAT
3' ss Score
9.24
Exon sequences
Seq C1 exon
CTGCCCACGCTGGGACATGCTCCCCTCTGAGTGGAGAGATGCCCTGCTTGTGAAAAAGGAGGATGGCGAGTTCTG
Seq A exon
GTGAGTTTTTAGGGACTCACTCTACCTGCGGGAAGTCTGCTGGGACAGGAGCCTTAGAACACAGGGGCCAGAAAGGATACAGAGAAACTCCTGGGATGGATGGGTCATGTTGCACATGTTGCAGAGCAATGGTCCCTATCAGCTGGGATTTGGGGATCCGAATCTTTTTTTTTTTTTTGCAAAGTCAGGGCAGGAGCAGTAAGATCAGGACTAAAAGGACATTGTTTTCAGAGGGAGAACACTGAGATTAGGTTAGCCGAAAACTCACTATGTAGACCAGGCTAGCTCCGGCCTCTTTTTGACCTCAGCTTCCCCAAGGCTGGCATTGCAGGTATGAGGGAATCTAAAGGAATTTGGAGTCAGTGGTTTTTTTGGGGAGGTTTAATGGGAACAGAACCATATTTTCTTTTTTTTTCCCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCGAATAGAACCATATTTAGGGTGAGCTGGGGAGGTTTAGTGACATTTGGGGCTTTGAATATATTTAATTTAAAACTATTTTCCTAGTTTTATATTGCTCTATTGAGTGTGCATGAAGCCCACTACGGTGGTGAGAGAAGTCAGTTCCTTTTACTGTGGGATACTAAGGTCAAAGCCTCGGGCTACCAGGCTTGTAGAGCAATAGCTTTTATTGTCTTGGCCATCTTCCCAGCCCTATTTGAGGGGTTTCTAAAGTTAGTTTGGAGAGATCGAGAAGTGTTTGTGAATCTTTCCAGAAGTGGGGTATTTGCGAGGCCTTAGGAGACCTTGGCAAGGCCTGAGGATTCGGGGTGTCTGGAGATTGGAAGTTATTCGGCAGTGTTTAAGGAACTGGGGGCTTTGTGGTGGTGGGACACTTCTGAGGTTCCTCAAGCTGGCTTTGGGGTGCCTGGGCACCTTTCATGGTTGGTTTTTCAG
Seq C2 exon
GATGGAGCTTCAGGACTTCCTCACGCACTTCAACACGGTCCAGATTTGTTCACTGAGCCCTGAGGTGTTGGGCCCCAGCCCGGCTGGTGGCGGCTGGCACATTCACACCTTCCAGGGCCGCTGGGTGCGCGGCTTCAACTCCGGTGGGAGTCAGCCCAGCGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020389:ENSRNOT00000027645:8
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=0.018
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.4=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.4=33.9),PF0106717=Calpain_III=PU(13.6=42.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGCTGGGACATGCTCC
R:
TCCCACCGGAGTTGAAGCC
Band lengths:
219-1194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]