RnoINT0028950 @ rn6
Intron Retention
Gene
ENSRNOG00000020935 | Capn1
Description
calpain 1 [Source:RGD Symbol;Acc:2267]
Coordinates
chr1:221363226-221364418:-
Coord C1 exon
chr1:221364333-221364418
Coord A exon
chr1:221363301-221364332
Coord C2 exon
chr1:221363226-221363300
Length
1032 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
GCAGTGCCTGCTTTTCACAGCTC
3' ss Score
6.23
Exon sequences
Seq C1 exon
GTCACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAA
Seq A exon
GTAAGCCACAGGGCCACAGGACAGCGGGCACTAGTTCGGGAGGTTTGAGGGAGCCTGGAGATGTCCTTGATATTTCTGCCTGGGTCCCACCAGGCTGGATGTGGACTCAGAGTTGGGTAAAGGGGTCACATCTTAGGAGTTTTCCCTGACAGAGCCCACCTAGGCTGTGGGCACTGGGATAACTTGTGGATACACCCAGGGCCTCTGACTTAACCTTGATAAAACATAACCCTGGCTGGATGTGGTGGTTTCTACTTGTAATTCCAGTGTTCAGGAAACTGAGGCAGGAGGATCAGTACAAATTTGGGGTCAGCCTGGGCTGCACAGTGAGTTCCAGCTCAATCTAGGCTATGTACGTAGTCTTAAAGGGGGTCGGAATATGGTGGCATATACCTTTAATCTCAGCAGAGAAAGGCAGATCTCTGTGAGATTGAGATCAGCCTGATCTATATACCCAGTTCCAGGTCAGCCAGGGCTATTATATAGCAGGGCCCTGTCTTCAAAAATGGAAAAAAAAAAAAAAAAAGGAAAGAAAAAGAAAAACAAAAGGTGTGGTGGTGCCTGGAAAAAAATGGTTCAGCAGTTAAGAGCTTGAATTGGTCTACAAGAAAGACCTGAGTTTGGGTCCCAATGCCCACGTTAGGAAGCTCATAACCCCATGTAACTACAGATACAGAAGATCTAACAACCTCATGGCCTCCACACAAGCACACACACACACACACACACACACACACACACACACACACACAATTTAAAAAGTAAAAATTGGTCAGGCCTTTAATCCAAGCATGCAGGATGCATAGACAGGTGCATCTCTGTGAGTTCAAATCCAGCCAGGGCTACATAGTGACACTCTGCCCCCAAAGGAAGAGGGACTCTTAAATAGGAATCTATAAGGACCTCAAGAGGGTGGCCCTAGAGAAATCCTGCTGATCTGGGCTCTAGAAACACACCAGGTTGGGCAGGACTCAGGGACAGAAGTTAGATAAGTCAGTGGTGTCCAAGCCTGGCAGTGCCTGCTTTTCACAG
Seq C2 exon
CTCCTATGAGTGGAACAAAGTGGACCCCTATGAACGTGAGCAGCTGAGGGTCAAGATGGAGGACGGGGAGTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020935:ENSRNOT00000028431:8
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=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(9.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.3=100)
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:
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]