RnoINT0029023 @ rn6
Intron Retention
Gene
ENSRNOG00000032375 | Capn13
Description
calpain 13 [Source:RGD Symbol;Acc:1562682]
Coordinates
chr6:24611477-24615498:-
Coord C1 exon
chr6:24615413-24615498
Coord A exon
chr6:24611552-24615412
Coord C2 exon
chr6:24611477-24611551
Length
3861 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGA
5' ss Score
5.85
3' ss Seq
GTCTTTCTATCCATACCCAGGTC
3' ss Score
9.16
Exon sequences
Seq C1 exon
ATTCAGTACCGGAGGGGCTGGGAAGAAATCATCCGCCTTTGGAACCCCTGGGGCAACACAGAATGGAGAGGCCGCTGGGGAGATGG
Seq A exon
GTATGAGTGCTGGGAACATGGGCAAGTGGAGATTCTTCACTGAGAAGGTGGGCAGGGTCTGGATAGCCCACTGCAATCCTCACTCCAGGGCTGGCCAGTTCATCACTGGTTATAGCTGTGGGCACACTTATACACGCAGAATATCATTTTTTAGGCATCTATTAGACACCTATCATATATGTGTCACAAAATGTACACTGGATTAGGTGTGTGCTCTGATGTGTATACAAATGGTAAAACCCTGTGTCTGTCTTCCAAAAATCTTTGAGAACTCATGCACCCAAGATTAGCAAAGAGGGTGAGAGGCAGGATGGGAGCCAAGCTTCCCCTTGGGAAGAGACAGCTGGAGAATAAAAGCATCCTTCCTGGAAGGGATTCCTTGGGCCCAGATCTGATGATGCCACAGATCAGCTCAGAGTTGGCTTCATGCCAGGTAGAGCTCAGATGCTCATCCTGACCCTTGATATGGGCTCAGTGTACCTATACCACAATGCTCCTTGCTTGTGGTGGGAGCTGCTGACTAGCTAGGTCTTCAACACCCCTATGAGTATCCACTCAGCAACTTCCCCCAGGTTTTGGACTGGTCGTTCTCAGCTGCCATAGCCTGACCTCTGGTGCCCTACTGCCTGCTGTGAACAATTAAACGTATTGCCATAGCTTCCTCTTATGAGGAGAACATTCAATATTTGTCTTTGTGCCTCCCATGTCCCTCTTATCTCCTCTTCCTCCCATGGCAGTCCCCAGTGCCAGGGCAACCGAGAGGGAAATTCAATAGAAGGACAGAGGCAGCAATGCTTGATTGGCTTCTCTTGGTGACCAGTGGGACTGGGCCTGTCACATTCTGCTCCAGATCTGTGCACACCTCTAAAAAGCATCCCAGCCCAGCGGCTGCAGCCTCACTACCAGCGGGGGTAGGAGCAGGATCAGAAAGGAAATGCAGTGTGTCAGACAAACAGAACAGGACCCAACAAGTAGTGAAAATCAATATGGTGTGTGCGCTGAGGTCTGGAAGGCACAGGCAGACAGCCAGTGTTGCTGGACCAGCTGCCAGCATCCCAGCAGGACTCCCTGGACCAAGCTGAGGCAAGACCCCTTGATTCGGTGTGGGCTCTGGGGCTGGTGTGTGCCTGGCCATACAGGCTCTCAGGAAATAGTGCGAGATGAAGGGATATGTGGTGGAGGATGAGAGAGAGAGAGAGAGAAGGAGAGAGGAATAGAAGGGGGAGAGGGAAAGGGAGGAGAAAGGAAGAGAAACCTGTAGAATAAGCCCAGCTGGAAGCACTAAGATACTCCCTGAAGAACGGGAGGAGGAACAGGAACAGGAACGTGGGAAAGCAGTCATGCACCAAGCTAGCCTGATATCATCTTCATTCCTGTCCCTTCTCCTCCTCTCTCACCTTATTCTTAACGTTGTCTTTTTCTTCTTCCTTCCACACAGGGCTCATGTTTGCCGAGCAAGCTCTTACCCACTTTACTATAGCCCGCTTCAGTATCTGTGTGGAACTGGGTCTTGTCTTATTGCTCAGATTAAGTTTCACTCACTCTGTAGCCCAAGCTGTCCTTGAACTTGCCATTCTTTCACCTCAGTCTCTGAAGGAGCTAAGCTAACACGCCTGGGCACCCAGACCTGGATTATCCTTTATGGGTCTTAAAGTAAATCTGAGTAACCTTTAGCTGTCCCCAGTTCTCCATGCCCAGCACCCCAAGCTGCTGACTGTGGGCCCAAAGGATATTTTGATTGGCTGACAGGAGTAGCACAAGTCAGACCATTGACAACAGGTTCCCTGGGGTGAGCAGAGGTAATAAACTCAAAATGGTTAATATTTCCCTTGGGTCTTCCATGACCTGTGAAGGCCACAAGGGACCTCAGAGCTCAGAAAAGGAAAAGGTCTTGCATGTGGGCATATTCAGGGAAAGCATGGCAGATGGCAATGAACTTGGGGTGTTCTTGTGGCAAAGACACAGGATGTGCTTCAAAAGAGACACTAGGTAGGACACCCCTCCCCCAGCCAGGAAACTGCTGGGCTGCAGCAAAGAAACGGAGTGGGGAGAATGGTCCTGGAGCTTAGACATTCACCTGACAGGAATGAGCATGAATGGAGCCTCGAAGCAGGAGTGTTCGAGCAGAGCAGTGTCCAGCCTGAGTGCAAAGGGTCAGCCCCTCTCACCAGAACCAGGCTAGAAGGAAGCGGAGGGGACCGCATAATCACCCTTTCCGTGCAGGTGGTCGATTTCTTCCCCACTCCGTAGGAATGGAGACGGATGGCAAGAGCCCGATGGTCTAATCTCAGCCATAATTGAAATTTCAGTCGCACACACTTAAAGGCAAACTTGCATGAATCAATAGCGTATTGATTTACACTACATTTATTTTCCCTTACACACTGCAGAAAATGTAATTATCGCTTAATTATAAAATTGCCATTTTACAATAACAGATCTGACTGCCTCAGCCAGCAGCCGGAAGCCTGGGTGGTGGTCTCTTCCTTGCTGTCCTGACACAGAAGTGACCCGAGCTCTTGATATAGGGCTCCTCTATGGGAAAGATCTCATTAAACTTTTGTGCCTCTGGGGCCTACAGCCTGTGGAGCTTGCTGCGGCTTTGAAGCTCAAGCTGAACGAAGAACATCTGTTGCCTTTTGCCTAGAAGGGTCTGACATCACACCCCAGACCTTGCTTCTAGAACACATCATCCAACTCTATAGTTTAGTTAACTAAGCAAAAGAGAAAAAACAAAATCATCGCATGGAGTAGGTGCCATGGTGTGTGTTAGATACCTGGGATGGTTACACAGAAGGCAAGGCCACTGCCCTCTGGGCACCTAGAGTCTAAAGTGACAAATAAGAAGCAATGTAGCTACATAGGTCGTTGGCTCTGCGGGACCCCAAAGGAAGAGCCTCAGGGTGAAGCAGGTGAGCTTTAGCCAAGCTTCTCATACAGGGTACCCTTTAGGTAAGAGAAGGGAAGGGTAGGAGGTGGCAGGTCAACATTGAGAGGTGTCTTCCTGACACAGAAGCGACATGGTGAAAGCAAAGAGGTATATGTGTGGGGTTGAAGGTAACCCTCTTTAAGGACATGAAGCTATTCGAGAGATTGCTGGAACAGGCTGCGGTTTCCTTGAGGAGTTTGACCTTCCCTGAAGGAGTGATTGGATGACACCAACAGGTCGTAAGCGGGGAGGTGACAGGATCAAGCACCTGCTTTGGAGGGCTAGTCTTGGTGGTAGTGTGGAGGATAGGGAAGAAAGTGGAAAGAGCTGTGCTCAGGGAAGAGCGGGCTGGACTGCGGTAACAGAGGGAGGAGAGAGGGGACTAGGAGGTAGAGTCAGTAAATGAATGATATTTGATACTGTCGAGGTAGACACAACAAAAAGCTCTTGTGTTCAAGATCGGTGATAGGAGAGGGAAGAAGATGATGATGGTTGAAGACAGAAGATGGTTTTTATAAATGTACATTAATTATACCAATTATGGCACCTTTATACATGTCTGAGATGTGTTATGATCGTTCTCCCACTTCATCAACCCTCACGACCTCCCGCCCCTTTCCCATTGTTCATGTATGGGATCAGCCGAGGCACCTGCCAACAGACAAGCTGGTAAACAAAGTATGACCTATATACATAATGGAGCATTGCCTGAACATAAAGAAAAGCCAAACCATGCTATTAAGCAGGGAAATGGACGGAACTGGAGGATATCATTCATGACGATAGACTACAGATCCTGGAGGCTAGATATCAGAGTTTTCTCTCACACAAAACATGTAGACTATAACCAAAGCGGCAGGTGATTTGAGGTCACTGTGGCCTCTGGCAGGAGTGTGGGAGAGCTCACTCTTGGTCTTTCTATCCATACCCAG
Seq C2 exon
GTCCCAGGAGTGGTGGGAAACCCATGGCTCACGGAAAAGCCAGCTGTACGAGAATAAGGATGACGGCGAGTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032375:ENSRNOT00000047853:8
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=0.038
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(9.4=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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]