GgaINT0079528 @ galGal4
Intron Retention
Gene
ENSGALG00000020084 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr3:7761618-7763501:+
Coord C1 exon
chr3:7761618-7761751
Coord A exon
chr3:7761752-7763326
Coord C2 exon
chr3:7763327-7763501
Length
1575 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
GAAATTGTTTCTGTTTTCAGGCT
3' ss Score
8.56
Exon sequences
Seq C1 exon
TTCTGGCAGTTTGGAGACTGGGTGGATGTAGTGATAGATGACCGGCTGCCTTTCCTAAATGGGAATTACCTGTCTGTACACGCTCGAACATCAAATGAATTCTGGCCATCCTTGCTGGAAAAAGCATATGCCAA
Seq A exon
GTAAGTCGGTTCTCCTACCCAGTGCTGAGTGCTTCATAGGGGTGGCTTCACCCTCTGCTTTAAAGAGATCACACAGGGAGGAATTCAGGCATGTGCTGTGCTGTGCTTATGTAAGAAACCGGCTGTGTGCAAGCACAGGGTCAATATAACCTGGAGATGTGGGTCTCATGCTGAGGACCTAACTGTACTCTGTCCAACTCTGGGATGTTAGTGTCTGAGAAGTAAAATGAAGAAGGTAATGACTGGCTAAACCAAGGGGATGGGCTTCCCCTCATTATTTTAAGCGAACCTCTTCACTTCAGCGTTCCTTTCTGTATTTTTCTGTTTAAAACTGCAGACTCTGTGCAGGGATTACCTCTGTAGTCACCAAGAGACCATGCAGATGTTGGGTGGAGACAGTGAGATCAGAATGTTATCCCTTAGCATTTGTAACGCTGCCTGTTATTAAAGTCTGTGACGAGAAATTCCCATGCTAGAGTGAAGCCTGAAGGGCTGGGTCTTGGCAGACATGCCCTAGAACAAACTGTCGTGAAGTGCAAAATGGTAATGAGAGCTAATTATTTCAGCAAATCCGATTGAGAATCAGCAAACGCTACAGCGGCATCTGAGAAACTCGAGAAGAGGATTCTTTTTTTGCCCTGAGATATTTCAGAGAAGTTGGCTCAGGAGCTGGTACCAGTTTGCTGCATAAGGTTCTATTTACAAAGCAAACCTCTACTAAATTAAATTGGCAGGAGATGCTCTTTATGAGATTCCCACTTGAGAAGCTTCTCCCCAGTGCCCATGACTAATTCCTTTCGTCCATGGAGGACAAGGACAATTCTTCAAAATACAGTTAGCCACAGACTTCATTTGATTATATACATTAAATACGGCGTGCATAGTGAGGTTTAACAGCATGATCTACCTTTTCTAAATACAACGCGTTCCAGCTTATTTGCTGCCTCTATAAAAAGCGCGTGATAAAGACAGAAGAACTGTGCTGGCAACATTAAATTATCGCCCTGTTGCGCTCCAGCAGAGTAATTTGGGAACGGTGCTGCAAACTTTCTTCTGTTTTGCATTGGGAGTACAGAGAAATAACCTCTATTTTCCAATTGCAAAAGGAATTCTGGTTGTTTTTGTGAAGAGCCATGACAAAGCGTTACGTAGGAATTAACAGCTCGCCCTCATTTAGCTGAAACACCCATTTAAACTAGTCGTGTTTGGCTCCCTTCTGGTTCAGAAGAAAGAAACTGAATGCTTCAGGATGAGATTCAACTCATCTCCCTGAAGTGTGCCTATTGGCAGAAGATGCACCGTACCTATTTCCCACTATCCATAACGACTCCAGACAGGTGCTCCAGGTCTGGGTGAACACAGTGGATGAAGTCCTCATTCATCCCAGAGGACGTGTGTTTGGGCATCTATTTCAGTCATGGTGCCTTTTATTACCTGACCTCACAACCTGGCCCTGAGGTCTCTGGCTCTCCCATTTTCACTGTCTCAGTGCCTGTGTCCATTTCAGAAGCCATCACTGTATGCTGTTTAATAAAAACATGGTGCAAGGACTACTGAAATTGTTTCTGTTTTCAG
Seq C2 exon
GCTGCAGGGCTCCTACCAGAACTTGCACGGGGGCTACATTTCTGATGCTTTAGTAGACTTCACAGGTGGAGTCCAAATGCAGTTCTCACTAAAGGACCCCCCTCCTGATCTGGAGGACGTGCTGAAAGCAGCTAGCAAATCTCGGTGTCTGATGGGATGCAGCACCTCGGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020084:ENSGALT00000014759:5
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(14.9=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(19.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTGGCAGTTTGGAGACTGG
R:
GAGGTGCTGCATCCCATCAG
Band lengths:
302-1877
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]