RnoINT0028992 @ rn6
Intron Retention
Gene
ENSRNOG00000020389 | Capn12
Description
calpain 12 [Source:RGD Symbol;Acc:1307341]
Coordinates
chr1:87075563-87077427:+
Coord C1 exon
chr1:87075563-87075641
Coord A exon
chr1:87075642-87077310
Coord C2 exon
chr1:87077311-87077427
Length
1669 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGG
5' ss Score
6.34
3' ss Seq
ACAAGGCAACCTCCTCGCAGGCT
3' ss Score
4.39
Exon sequences
Seq C1 exon
GCCACATTTGACAAGTTCGATGAAGATGCTTCTGGGACAATGAACTCCTGTGAACTGAGGCTGGCACTGACTGCCGCAG
Seq A exon
GTGTGGCTGGGGACCTGGAATGGCCGTAGGGACAGCACCCAGTCCTCAGAATCTTGTCTGCACCCCTCAGCTGTGGCCATCCCTAATGGTCCCAGGGACCAGTGCCAATTTCCTCTGACCACTCTTTTCTGCGACATGGCTAATGTGTAGTGTGGCAAGGAGCCCACAGGGTGCCACTGGACAGCCACAGAACACCCCAGCACCTTCTGAGACTACTGCGCTACAGCAGAGGAAGGAAACCCCACCCTAAGCCATAGGGAAATGTATACTAGGGTGTGATTATGGAGATCCCAGAAGACGAGTCAGTTCCATGACTCCGCCTGGGTTCACCTGTGACCACTAAGTAGGAGCTGGGGCAGGCAGGGGGTGGATGTGAGAGAGATGACACTATAAATATGAGACCTGGAATGAGCCAGTGTCTGGGGACAGGGAAGACATGGTCCCAGGGAATCATGGTAGAAGGTGGGGGCCAGGGTGCTGAACAAGCAGTGGGACACAGGACAGAGGGAACTGGATTGTCCATCCACTCGTTCCAGAGTGCCAGGCACATGCCAAAGGTCGTTTTGGATAGGAGTCTGAGAAGGTCTGCTAGCGAATTCTGCAGTTCTAACCGGTTGACCGAGGGCTCTTGGCTATCGCATCTGGGCCAGCAAATCTCAATACTCAAGGGTACATGAACATCAGAGGGACACCGACCTGCCTCAGGCCACCAGAGGCATGGTGTGTGTGGGGGAGGGTAGCATTTGTTGAATGAGTACACAAAGGTACCATGCAAACTTTGAGACTGTGTGGGGCACATGGAAGTTGGGAGGGCCAAGTCCTTAGAAACCAGTTGCATTGTGGTCCTACAGCAGATGCGACAGAGCCAATGTCTAGACTTTAGGTGTAGCCTCAGAAGAGGAGTCACACTGCAGTGTTCTCTGGTACCCAGGCAGGGAGACAGTCCTTCAACCTTCGAAGGAGCAACCTGCTGGCACCTTGAGAGGTAGCCTAAGTGACCTAAGTGTCGTGAAGGGCTGGGGATGCAGCTCAGTGGGAAAGCTGCTGCAGAGAGCCTAGCAGTGAGGGGCTGCAGGGTAAGTGCAGCGGAGAGAGCATGTGCTTAGCCTGTGCGAGCCACCCAGGGTTCCATCCCCAACACTCCAAAACAGCGACAAAACCCCAGCTCAGCTGGACAAAACCCCCAGCTCAGCTGGAGAGCGCTGAGATGCCCTGAGCTTTCCTATCAAGTACCACAAACACCACAGGCTACACTCCTGGCACCTGGAAGGAGGGGGCAGGAGACTCGGGAGCTGATGACCGCCCCTGGCTGTGTAAAAGGAGGTGGAGGCCAGCTTCTTTCAAACACAGCACAACACAGCACACTGCATGGTGTCTTTGGTAAGGTACTTGCAACAAAAGTGTGAGGGCCAGAGTTCAGATCCCCAGCACCCACGTGAAGGCCAAGTGACTTCAGAGGAAGCTGGCTAGCTAGAAAAACTGGTTTGAGTTCTGGATCTCAGTGAGACCCTGCCTCAATGTATAAAGGAGTAATTGGTAAGATGCTTCCGACTGTACACTTGCCCACACAAGTGAACGTACTATAAACACCCACCCCCAACATTAAAATGAGAAGCAACATGGCGAGGGGCATACTGTAAACACAGTAAACAAGGCAACCTCCTCGCAG
Seq C2 exon
GCTTCCACCTGAACAACCAGCTGACCCAGGCTCTCACTAGCCGCTACCGAAACAGCCGGCTCCGCGTGGACTTCGAGCACTTTGTGTGTTGTGCAGCCCGGCTCACCTGCATCTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020389:ENSRNOT00000027645:18
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCACATTTGACAAGTTCGATGA
R:
GAAGATGCAGGTGAGCCGG
Band lengths:
195-1864
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]