RnoINT0029131 @ rn6
Intron Retention
Gene
ENSRNOG00000003468 | Capn8
Description
calpain 8 [Source:RGD Symbol;Acc:620085]
Coordinates
chr13:101018849-101020665:+
Coord C1 exon
chr13:101018849-101019009
Coord A exon
chr13:101019010-101019666
Coord C2 exon
chr13:101019667-101020665
Length
657 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ACTAACATGTACTTGTGTAGGCT
3' ss Score
5.31
Exon sequences
Seq C1 exon
GATGTCCTTTTCGGATTTCTTGAAGCAGTACTCCCGACTGGAGATCTGCAACCTGTCCCCAGACTCTCTGAGCAGTGAAGAGATACACAAATGGAACCTAGTACTCTTCAACGGCCGCTGGACACGGGGTTCTACAGCCGGGGGCTGCCTGAACTACCCAG
Seq A exon
GTGAGGCAGAGGGCCATCTGGCTTTTCCTGCGGAGACCGTTTGGCTTTTAGCATGGATCTTTGGATAATTAATGCTTGTGGATCTGGGGTCCTGTTTCTCTTCTGACTTGGAGGCCCGGCTGGGGAGGGTGGACAGTGGCTTTGCAGCTGCCTGTCTGAGGCCTCACCTCGGCCTGCTGCTTAAATCATTAATCACCTGTGTTTAAATCATTTTTGCTTCAGCCCTGCTGCTATCTCAGTTTGCTGCATTTTGGTCACCCCTCCTGGACCATTGCTAAGGCCTCCTGCTCTTCTCTTGGACTTTTCCCTTCCCTACCTGGTCCAGCTGGTTGACACCACCCCACTGAGCTTTGGGGCCCAGTAACTAATGCTGTCAGAAGGCAATCTACTGCTTCTGTGGGTTGCTGTCAGAAGGGCAGCCATTACGCTTTGTGTTACCCGAGTTAGAGTGGAAGGGGTAATACTGTGGGGTTCAGGAATGGACATACGTGGGTTACGTATGGGTCATGTTCCATTCCGTGGAGGTCACCAGGGATCTATCCCTGGTGGGGATGTCCTGGTCAGACTGCTGCCTCTGACTTAACTCTGGTTCCTCTTCTTGCCAAAGGTGAGAGGGCTGCCTGGTTCCTGCCAGATGACTAACATGTACTTGTGTAG
Seq C2 exon
GCTCCTCCTAGGTCGAGCCCACTGAGGCAGCAGCTGAAGAAACAACTGAGAAACGACCCTGCAGCTCCCTGGAGAGACACAGGAAAGAAAAACATGCACCCCGCTTGCTAGTGCCCTCCTTCACACTTCTTTGGTTTGCTGTTGCTCTGCTGATTTGTGTTGATTGACTTGCTATCTCTGGGCAGGGTGGAAGAGCAGCCATTTCTTCCCAACCAGAGCACTGCGTGCTGTAGAAAAGGCAGCATTGTAAAACCCCATGTGGGTACAGACAGAGCACAAGGTCCTCCCTCCACTCCCATCCATCTCCATCTGGCTGCAAAGACCAGCTGTTGTCAGGCCTGAAGGGGGAGCTGATGGCCTGCCCCCATCAGTCAGCTTAACGCTTGTGAGACCTGAGGGGCACTCCTTTCCTGGAGCTTCCGTTTCTCAGCCCTCACAATGGTTCATAATTCCTACCTTCCAACTCGCTGGGGCCCAGTGAGCATTGTAACACAGAGTGCACGGGGAAGCGCTTTGTAAACTGAGCAGCGTTATACAAATGGGATGTGTTATTTTTATGGCCCATTCTCTTCCTATAGTACTGTTAAGGAGTAAACAAAAAATGTGGGGATTGCCGTAATGCTACATTCGGGAGAAATTAAAATATGCTCACCATTAGTGAGCTCTTAGGAAAGACGTAGGAAATTCGCGTGGATCATTCTGGAAGCTCAGAACCATAGGGGGTTCCCAAGGTATCTGCACGCACCAAATCATAATCCCATCTGTGCTGCCAGCTAGCTGTCAGAGAGAAATGGATTGTTCTTGCCTCGTGGTAATGAAGTAAGTGCAGAAGATTACTGAATTTTCTGTCTCCCCTGGAATCCACAGACACCTGATCTTAAAATCTATATACACCTGAGCCCTGAGGGGGGGGAAAATATCTAGAAATGGAGGTTCTGAGGAGAGGCTGAATAAGTACTCTTACTGTTAGGGGAAAAATAAAGACTGTGCCTCGGCCGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003468:ENSRNOT00000004649:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(92.3=43.6)
A:
NA
C2:
PF0106717=Calpain_III=PD(3.8=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTAGTACTCTTCAACGGCCGC
R:
TGTGCTCTGTCTGTACCCACA
Band lengths:
342-999
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]