GgaINT0054933 @ galGal3
Intron Retention
Gene
ENSGALG00000009050 | CAPN3
Description
NA
Coordinates
chr5:27841866-27842861:+
Coord C1 exon
chr5:27841866-27841924
Coord A exon
chr5:27841925-27842039
Coord C2 exon
chr5:27842040-27842861
Length
115 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
TAATTCCTTCTCTTCCTCAGTGG
3' ss Score
6.83
Exon sequences
Seq C1 exon
GGGCATTCCATGCCTTTGATAAAGATGGAGATGGAATCATAAAGCTCAACGTCCTGGAG
Seq A exon
GTAAACTGCTTTATGCCAGTATTTTTAACACAACACCCCAATACCACGTTATTAATTCCCAGCACTGTCTCACACATTCAAGTTGGCCTGATCTTTAATTCCTTCTCTTCCTCAG
Seq C2 exon
TGGCTGCAGCTCACCATGTACGCCTAACCCCAGAGCCTTCATCAAGGACCTGCTCCAGATTGCTGTTTTAAGTAATGAACTCAATCCATCCCCAATTACAAATGAGCATTCTACAAGATACATGCTTCGCTCGCCGAGATAAAATGTGCTTGAAAGATAGAGACAGCCCTGCTTCAGCAAGCAAACCAGTGCTCATTCCCTGTACCTACTTCCATAGTGTCTCCAGGACATTTACTTTCAACAGTGAAGATTAATTTATTGATGACTGCATTTAGGTTTTTCTGCATGTTAAAGACACAGAGCACACATCGTTACTCTGTTTATACTGACACTTGGAAGTGCCATCCCTAAAATCAGTGTGGGTCAGGCAAAACTGGGTCTGGATCTGAACTGTGGAAGTCAGAGGTGTCTCCTACCACCTTGTAATTAGTCATTAACTCCGTTCTGATGTTGCTACTATCATTTCAGCCTTTTCGTACTGTTGACTATTTCATTGAGATTGTGCTAATTACATTAATATTATGAGTCATGACCATGTCATTACAGCTGTAGCTTTGGTTCCCTGCTGTGCTGGAAAAGTGGGCACCAGACACAGCAGACTGCAGTGTCTGGGTATGCCTTGGCCTGGTGCCTCAGCAGAAGCAGCAGAGCTAAGCTACTTGCTCTCCTTTTTAGTATCTCCAATGCTACCATACTTAGACATAGGATGGTTTTAGAGTGTTGGTTTTTTGTTGTCTGTTTGCTTGTTTTATTTTTTTTTTTAATTGTAACTGCATTCTCTGTAACATTGAGAAAGTGGTTTTCCACTTTCAAGGAAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009050:ENSGALT00000032636:22
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:
PF134051=EF-hand_6=FE(73.1=100)
A:
NA
C2:
PF134051=EF-hand_6=PD(7.7=22.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCATGCCTTTGATAAAGATGGAGA
R:
GCACTGGTTTGCTTGCTGAAG
Band lengths:
245-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]