GgaINT0088813 @ galGal3
Intron Retention
Gene
ENSGALG00000010186 | CANX_CHICK
Description
NA
Coordinates
chr3:31550244-31551764:-
Coord C1 exon
chr3:31551706-31551764
Coord A exon
chr3:31551497-31551705
Coord C2 exon
chr3:31550244-31551496
Length
209 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TCCTCTCTCCTTCTCCTCAGTGG
3' ss Score
10.12
Exon sequences
Seq C1 exon
GGTTCTTCCACAGCATGGATCGTGATGGCACTGGCACCGCTGTCATGAATCTCGCTGAG
Seq A exon
GTGAGAGCTCGGTGTAATGAGGTGGGGTGGAGACAAGGGAGAAGACGCTAAAGTGGATGGGACACCTGGGGTGGGTTGTAGAGTGCCCTCCAGCCCTGTGGGTGTTAAAGATTGAGAGATGGGAAAGGGAACTTTGTCAGGTCTTGTTCTCAGAGGGCCTTTGGGTTTGTGTGCACCAGCCCCTGCTCATCCTCTCTCCTTCTCCTCAG
Seq C2 exon
TGGCTGCTGCTGACAATGTGCGGCTAGGAGCCAGGACAGATGCGCTGTGACTAGGACGCTCCAGCAGGCCAGGCCACCTCCAAGTGCCTCGCTTCAGGTCCATGGACACAGGATAATCTCCCTCCTCTTGCTCCATCCTATGCTGAGCCACCAGCCCTGCCTGTCAGCACGCCTCGCTCCACCCTCACCCATGGAGCATTTTGCAGGGGGCAAGGCAGGCAGGGGCTGCCCTTCTCCTTTTCTGGGCTGGGCTTGCTTTCCACCCTTCTCCTCCTCTTGTCCCACCCCAGAAGAGAAGGAGGGCAAGCAGCACGGGGAGTCTGTAGTTCACTGCACCTAGCTTTGGGGCAGCTGCTTAGAGGCCAGTGCAGGAGCAGACTGGGGGCTATCCACCCGGCAGGGAGAGGTGGGAGCTGTGGGGGGGAAGAGGAGGAGGACTTGTTTTGCTTGCTCCAGTGCTGTCTCATCCCCTGTGGCATGTGCTACCTGTCCCAGGGAGCATCAGCAGATGCTGCCTCGCTTAGGCAGGGCAGTTGGTTCATGGGGAACCAGGGTGAGAAGTTACACGCTCTTAATGCCATTGCCTTGCACTCATCAGCACTAAACATGACCAAAGCACGGAGCTGCAGCTGGTCAGGACACTGGTGTTCAATACCTCCTGCCGCAACCTCTTTCTGCGTGGCCTTCAAGCTCTCCCTCACACCCCTTACTCTCTGCCCCCCTCTGTCCCACCATAGGGCCAAAGCCTATCATTTATATCACTCCCCTGCCACGTGCCACTATAACACAGCCCATCGTGCTCCTCTCATCCTATGCACGCACAGCAGTACCACTACACCCTTTCCCCAGGGCTGTCCTGGCCTCCCCTCCTGCTGCCACGGTGGAGTTGGGCCAAGGAGGACTGGTGATGGCTGGGAGGCATTTCTCCAGTACACAGTTGTCTGTTTTCCTCTTTCCCCCCTCCTTTCACCCTGTTATGATCCCTACAGCCCTCGGGCTCCTTCACTCAGCACAGATATGCTCCTGTGCCAATGTATTTGCACTTCTCCACACTCCTCACCCCCCTCTGTTCCTGTGGATGATGGGGTGGCTCCAGCATGGCAGTGGGTAAAGGCCCAGCCAAGGCAGGCAGGCCCTTAGCCGCTCCCAGGTCTACGGCTCCGGAGGCCGTGCTTGCAACAATAACCACTCCTGCCCACCTGGCAGGCCCGCTTCCTCTTTGTGCTCGGGGCAATAATACTAGCTCTGTTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010186:ENSGALT00000016557:20
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTGTCATGAATCTCGCTGA
R:
ACAAGAGGAGGAGAAGGGTGG
Band lengths:
302-511
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]