GgaINT0088800 @ galGal3
Intron Retention
Gene
ENSGALG00000010186 | CANX_CHICK
Description
NA
Coordinates
chr3:31556596-31556973:-
Coord C1 exon
chr3:31556888-31556973
Coord A exon
chr3:31556671-31556887
Coord C2 exon
chr3:31556596-31556670
Length
217 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TTTCCCTCCGGCTATTCCAGTTC
3' ss Score
7.64
Exon sequences
Seq C1 exon
GTGAACTACCGGGGTCAGCAGGAACAGCTCATCCGTATCAGAAACCCCTGGGGTCAGGTGGAGTGGACTGGAGCCTGGAGTGATGG
Seq A exon
GTGAGTTCAGGTGGGACTTCAGTAAGCCACTGGCACTGCCAGTGAAACAGCAGAAGAGATCTTGCACAGCGCTGCTGAGTAGAAGTTCACAGCATGCTGTTCCCTTCACAATGGGGAATGGGTCTTTTGAGGGCCAACTCCAAACTGCACAGCACTGGAAATGTCTCAGCTCACCTTGAGTACTTCTCATCTAATTGTTTCCCTCCGGCTATTCCAG
Seq C2 exon
TTCTTCCGAGTGGGACAACATTGACCCCAGCGACAGAGAAGAGCTGCAACTGAAGATGGAGGATGGAGAGTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010186:ENSGALT00000016557:7
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=0.308
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(9.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.3=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:
TGAACTACCGGGGTCAGCAG
R:
ACTCTCCATCCTCCATCTTCAGT
Band lengths:
156-373
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]