GgaINT1008314 @ galGal4
Intron Retention
Gene
ENSGALG00000020084 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr3:7783869-7787813:+
Coord C1 exon
chr3:7783869-7783920
Coord A exon
chr3:7783921-7785827
Coord C2 exon
chr3:7785828-7787813
Length
1907 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
CTCTTTACCTTCTCTTTCAGGTG
3' ss Score
13.32
Exon sequences
Seq C1 exon
TGGCTGACTCTTGTCATGTACATCTGAAGAGTTGTCAGAGCTCAATGTGATG
Seq A exon
GTGAGAAATCTCCTTAGTACTGTACACACTGAGAAGGAAGGGGTAGGTGCCCTTACATTGGCCAGAGGGATCGTGAGTGGGGGGGTTTTAGAGACATCTCACCCTGGGCTACGGTTGGATTTGAGAGGAAGAAAAAAGGTGAGAGCTGCAGTGTGAGGGTGCTGGGGAGGGATTGCAGTGGCATCTGAGGGCTGCAAAGGGAACTGGACAGCAACTGAACTTCTGGCATCTGTTCCCTGGGGAATTGCTGACAGCACTATAGGTTGCTCAGTCTGCCAATGGCTCGCTTAGCCACTCGCCCTCTCTCTCCACGTGAGGTGACACGTTTACAATAGATCAATTAGTAGAACTTAGCTTTTTTGTCTGCCTCTGAAGCGTGAAATTACTCCTGCAGGTCTTACCTACAAGTGGCAAATTTAAAACCAACTAGAGTGTGGGGATGTGATTTTTTTTTGTCAGTTTGATAGCCCATTTTTAACTGTATTACATAATTCAGTTTACTTTTGAACAACAGTCCCCGCGTTGTGTTTCATTCGATGCTTGCTCCCTCCACGTCAGGCCTGGAGAGCAGCATTAAGTGCCTCCAAAGTTTACTTGCATCTTCTGGCTTTGCTAGCTGGTTCTAGAGAAGGGCTGTACCTTTCCTACAAATCTTGCCCTGTCAATAAACCACCTCAGCCATCATACTTTGGCTAATCCACTGGGATGCAGCTGTTCCCGATTGCAATGGTAAAGCATTAGCGCTGGTTCCAAACAGCTGGCACTGAGGAGAAAACAGATGAAAACCAATCCTTAGAGAAGGGGCACAGCGAAGAGCCAGCCCGGCTGATGTGCTGAGGATGGACCCAAGAACTCACTGTGTACCTTTGGGCAAAGTCACACACTTGCCTTATCAACCCCGTTCAAAATCTGAGCGGAAAAAAAAAAAACAAAATGAAGCCCAGGATCTTCATTGGAATTCAGAGACTGCATCCATGTGAGGCTTTCTATAGACAGATTTTGTGATCATAAATAATACATAAACAGAACGTCTGGTATCTCGCATCCTGTTTCTGAAGGCAGTTGACATTGGATGCCAGCTTCAATGAGAAGTTAGAAGGGGAAATACATAATAAATCTCAGTCCCTGGGGAGGCAGAGAGGTGGATTCAGACCCAAGGCTCTGTGCCTTTCACCCTTGGCTGCAGGACAGTGTTCATGCCCAGCTGCTCCCCTGCCTTGGCTGCTACTTGCAGCTGCTGTGCTCAGCTGCAGCAGGAGCTGGGCCTCACTGCTCAACACTGTGATGCTTTCACCCCCCTAAGTGTGTTTGTAGTTATTTACCTGAAGGTTTGCCCTTTGCAGACTTGCCTTGGACAGCAGACCTTCCCTTTGTCACAACAAAGCTGTATTTTGGTGTATTCGTGCTGTGTAGAAACAGGTTATTAGTAACACAGCACCCACCCCTCGCACCACGCAGTGTTATTGGGTAAATATGAGATGAGAAGGCTCTCACTTTGGGGATTAAGTTGCTTAAATTACTGCCTGCAGATGATATTTGTAGTCTATTTAGTCTCCTTTTCTCCTTTCATGAATCATTCATAAACCGATCATAACTTCTGCAAATAGATCATTAATCATCATTTTCACTTACCAGTTTTGAATGAAACTCTGCCTGTAGGGTGTTTGTAAGCTTTCACTTCAGCAGTTCCCCACTTGCTTGCAAATGGTGATTGGGCAGCAGCAGCGCGGGCCCCTCAGAGGACTGAAACTCTTCCAACTACAGCCAGACAGATCACGAGTACTGGTGGGAGAACACGTGCGGATTGTGTTGCAAACATCCTGATGTGCACGATAGTCTCAGTGATTTCCAAAGCCTGACCTCCAGCTGTCTGTGTTCTGAGCGAGTCTCTTTACCTTCTCTTTCAG
Seq C2 exon
GTGGCTTTTCTCCTCTTTGGTATGAGGCACCTCCGGGTCCTCCCACCCAACAGCCAACCGTGGGGCTCTAGAAGAAGCAAACACTGGAGGCGTGAAGCTGGGTTGTCTTATTTGCTTATGTGTCACCGTACCTAAAGCTGAAAAATATCCGTAACTTCTCGGTAACCCCACAAACAAACACACAAACCTCACCTCCATTCTTTTAGCAGTGATAAAAAGTGACCTGGTGTTCCATTCTACTCGCCTACTGGGGCCAGCCTGGCAATCTACAGGTGGTGGGGATATCACCTTTTGTAGCACGGTGAGGCAATGTGACATGCTATGGTTTCAGGGCACCTACCCAGCTCCCCTCCCCATGGGACAAACTGCCTCGTGAGGCTGATGCTCGTTAAGCAAGGAAGATAGCCATCCACTTTAGGAAATAGCATTGCCTTGTTTTATATGCCATATAATAGATTCAGTGGTATTCAGCACCAAATGCCAAGCTGCTGCAGAAACACCTCTGAATCAGAGCTGGTTGTATGAGAAGAACCATTGCTCTGCAGATATCAGTGTGTGTTTGAAAGGAACGCATTTAGGAAAGGAGATGGGGGATCTCTTTAGGAGGAACCGTTTGACCATTCAGGGGATGAAGGCATCTCCTGAAGCACTCCCCGTGAGCATTTGTAGCTCAAGTCCTGCAGCAGGCCACAGCTCCAGCCCTCTCTTTTAATGTTCACTTAATAGAAGCAAGTGCTAGAGAAGGCAGGTGTCAGCACTCACTCATCTCTGCTGCCCAGAGGTGGAAGCAGAACGTTGCAGACACTTCTTCATAGATGGCAGACGTTTTCTAAAGCCAAAATTCAGAGTATGGGATAGAGGAATTTACTTTCCATTAAATCACATCAGGAAAAATCACTTCTGTATTTCTGGTGCAATTTCACTTGTTACAGCTGGGGGGGAGGAGGGGGGCGTTGTGCTGTTGGGCATTGAATGGCTCAACAGTGCTGCTGGGCCAACAGTGGCCACATTCCCAGTTGACCTCTGTTAGAAGCATTCAAGAGTTGCTCATAAAAGTGTCGTTTTCTTGATGGATAGACTGAGGTGGTGATTTTGTGTGAGATGTTAAGCACGAGCAAGTGGATGTTTCAGTATTATAATGCATTTCTGCCATACCACTAACCAAAAATAACTGCTATCAGGCATTCGTAGCTTTCAAGACACTTTGTGGGTGAATTGGTTGTGTTGTCTTGGTGGGGGAACTGAGGTGTAGAAGAGTTATTTCTTTTTCTAAGTCAACAGCAGAGCAAAGAAAAGATTAAGAAAAGGGCAGGATTGCTGAAACCCCCATTTAATTTTGACTGAACAACTGGAGAGCCTTTAGGAAGGCCCAAGGCTCAACTGTATGGGTAGGGAGGGACACGGTTAGCGAGGACGGTGGTTGGACATTGTCATCTTAGAGGTCTTTTCCAGCCTTAATGATTGTACCATCCGCTCTTTGGAGAAACAGGCAAGCTCCTTAATGTCTTCCTGGACAACACCCCACACCAGAAGCCCACAACCAAAGACGTACACAGCTTCAGCCAGCTGCAGTTTCTGGGCCAAAGCACCTGAATGAAACTGTTTCTCCCTTTCACTTGTGAATTGGGTGGGTTGGAGAAGAACCCTCGAGAAAGAGCTGTAAACAGCTGTAAACCCCCTCCCCCCTCACTCCTGATGGGGAAGCCCCCCTGTGAGCCTAATCTCATTTTAATTTGTGATTGAAGGTGTGTGCATTAACGACTCGACTATTAGGGAAGTATCTCTCAATGTAGCCTCTTCATTCCTCTTCAAAACCCGTTTCTCCCGTTCTCACCTCTGGGATGTTTAAGCACAGGCAGTTCAGCAGAGGAGGAAGGGGCTATTTAAGGCGGGGGCTGTTTGCCCACCCGCGCTGTTGGCGCAGCAGCGGAGCCTCCCGCAGTCCCAGACACGGGCTGCAGGTGGCACGCTTGATCTGCGGACTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020084:ENSGALT00000014759:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGAAGAGTTGTCAGAGCTCA
R:
CATTGCCTCACCGTGCTACAA
Band lengths:
342-2249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]