GgaINT0087016 @ galGal3
Intron Retention
Gene
ENSGALG00000011136 | CAPN9
Description
NA
Coordinates
chr3:42383344-42385775:+
Coord C1 exon
chr3:42383344-42383408
Coord A exon
chr3:42383409-42385706
Coord C2 exon
chr3:42385707-42385775
Length
2298 bp
Sequences
Splice sites
5' ss Seq
GATGTATCC
5' ss Score
1.64
3' ss Seq
TCCTTAATTCAGATTATTAGACC
3' ss Score
-2.27
Exon sequences
Seq C1 exon
CAAAGGATATCAAATTCAAGAAGTTAAGTCTCATTTCATGCCGAAACATCATTTCTCTTATGGAT
Seq A exon
GTATCCTTTTAAATAAGTGCTTGTGGAGCTGAACAAATACTGAGTATAATTGCTCATAGCAGGGCCTCTCATGGATGTTGGAAATGAGTGTGGCAATGTCATGTGAGAACACTGTCCACTGGAAAGGAAAAGTAAAAAAAAGTGAAAGTTGCATCCTGATTTTTGCTTTAGAAATTCAGGGTTAAGAGCTTCAAGACAGACCATTTTCTGCTGCACACTTCAGAGGGAGATGCTTCCACACCTGTAGAAGTAAATCTCAAATTATTTACATACAGAACAGCGGATTTTTCAAGATGCAGATTATTCAAAAAAGATCTGGAAAAGATGACTGAAGTATTACTCTAGTCTGTTGTCTAGAGAGTGGAATTCGCCAGAGGTGTGCCTGGAAATTGTGGGTCAAAAAATTAGGAATCAGCAGATTGGTAAAAATTAGTGACATCAAGGCTGTGGGTTTTTTGACAGCTAGATGAAAAGTTGATAAATCTGGTCATTCAGCTGGACTCTGGAACTCCAGAAAGCAGACTTGTGGGTAAGATTTTTCTGTCCAAATTTAGGCATTTGTGATGGAATTGTCAATATCTATGCTAGCTTTCTAGACTTCTCCTACAGACAGTGAAAAGGATGGTATAATTATGCTTGTTCTCGATGTGCTTAATTGTAAGAAATGCTAAATGATGGCAGAGATATCGGATTTGATGAATCACAGCCCTGGTAGTTCTGCACTGGGTTCATCCTTTGCTATGTTCTGCTGTCTGTTGAAATTAGTATGGCTTCTCTTCAGGTAGACCTATTTTTGGCAGTGTGCTTTTCTGACAGCTGATTTTGTTATAAGAGACAAAACAGTTACAGTTCTGACAAGACAACTATCTAACATTTGAGTTTTGTCAGCTAGTAAATTCTTATGTTTTCCTTCAGTTGCTAAAGTCCATGATGGCAGTAGCACGCTCTCAAACACTTCCAATACAAAACCAAAACAAACAAAACTATCCTGTAAAAGTCATGTCCATAATATTAAAATGTGGTGCAGATTCATCACTATGCACGTGCAACGAGAAACAGCGGACCAGGCCTAAATCTCCTCCCTTAGAAAACAAGCCTCAGTAGGGAGCCAGCCCATGTTTACCTCTCATCCTTACATGGTATTGGAGCAGAACAAGAGTCTACGCTTGACCCTGGCACATGGCTATATGGCATATAACCAAATAGTTTCCATGATTTGCAGTGCTTCCAAAAAAATTTCTACATAGTTTTGAATTAATGGGGAGATATCTTTTCATCTGCTTTGGAAGCATGAGGAATGCAGACATAACCATCCCATTCTGGTCATGGCATTTAAAGTACAATGGAGGAGCGAAAGGACACAAGTGGAAGCTTGAGTTGATGTTTGCAAGTCCATTCCATGTCATACGCCACCAGATTCCCTGGTTGTAAGTCACCATGCAGCAGTGGGGATGGGAACAAATCTTGATATGACACCAGAAAGAAGAACCTGGCTCGATACAAAGGCAGGCTTTTCGTAGGAATGACAATGCCCATGGAACCTGTGGGTGCCCTCAGTAATGTCACCAGTATAGATGCTTAAACAAAAGCATGCTATTTAAATAAGGATGAGCTGGACCCTGCTTGGCACACACTGGCCATTGTGAATGCCTGCTGAGCTAGCGTTCATCTGAGCAAGGGCTTTGTCTTGAAAAGTAAGATGGGAAGGGGAAGAGGAATACGAGTGAGGGGACTGTCAGTAACTCAGTACAATAGGTATTAAGAAGACCCTCACATTTCAGGAACAGTGAAGTCCAGGTACGTCTTGTCACCACCTCTCAGCTCTACTTTATAGACTGCTATTTCAGACCAGATTTTGCCAGCCTTGTCTCACAACTCTCACTAAATCTTTGATGGAGTCACTGCAGTAGAGCCTCATCTGTAGATAACAATACTGAATAACACATTGGTTGACTAACTGCTTCAACTACAGTAGCAATTTGTTTTAATCAGGTAATTTCATTCTCTGAATCATTTATATCACATTTACATCTAAAGCTGTTCTTGCCTCAGAACAATCTGTCTTTCTTATTCCTGTGGAGCCTGCATTGTTCAGCTGTGTTTTTCTATCACATTATGTTCCCTAAGTATCGCAGCCATAGCCATGACTGTAACTGCTTGAACTGCACCTCATGATAAATCCTGCATCAGGTTCAGTGGCACCAGACAATGTAATGTTATATGTTTAAAGAAACAGCAAATTTAGCTGGAATTTGCACCTTTATGCAATGTGTCGTTTTCCTTAATTCAGATTATTAG
Seq C2 exon
ACCAGTGGCAACGGGAAACTGGAATTCAGTGAGTTCAAAGTTTTCTGGGAAAAACTGAAGAAATGGATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011136:ENSGALT00000018152:15
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:
PF0003627=EF-hand_1=PU(31.0=40.9)
A:
NA
C2:
PF0003627=EF-hand_1=PD(62.1=78.3),PF134051=EF-hand_6=PU(6.1=8.7)
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:
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]