GgaINT0125522 @ galGal3
Intron Retention
Gene
ENSGALG00000004604 | CCBL1
Description
NA
Coordinates
chr17:5914074-5914522:-
Coord C1 exon
chr17:5914336-5914522
Coord A exon
chr17:5914151-5914335
Coord C2 exon
chr17:5914074-5914150
Length
185 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
GTGTGCTGCTCCTCCTGCAGAAT
3' ss Score
10.38
Exon sequences
Seq C1 exon
GATGCTGTGGCTAAAGGTTTCCAGAGGGAGCTTGAGCACTATGGGAAACCAGACAGCTATTTTGTCCAACTGCCCAGGGAGCTGCAGCAGAAGAGAGACCAGCTGGTCCAGAGCTTGGTTGCAGTGGGGATGAAACCCATCATCCCTGAGGGCACCTACTTCTTGGTGGCGGACATCTCTGAGTTCA
Seq A exon
GTGAGTTCCAGTGCTGCTTGGGAAGGGCAGAGCAAGGGGGTCAGCTCAGCCTGGTACTGCTGCTAGGGACAGGAACCTGCACAAACACCATCCAAAGAGGGGAGGGACCACACATTTGAGCTCCCAGAGGCTGTGGGTTTGGGGTGAGGTACCCAGCCACAGCCTGTGTGCTGCTCCTCCTGCAG
Seq C2 exon
AATCTGAAGTCCCTGATGTCCCCAACTCCGATGAGCCCTATGACTCCAGATTTGCCAAGTGGATGGTCAAGAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004604:ENSGALT00000007326:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0015516=Aminotran_1_2=FE(16.0=100)
A:
NA
C2:
PF0015516=Aminotran_1_2=FE(6.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTCCAGAGGGAGCTTGAGC
R:
GTTCTTGACCATCCACTTGGCA
Band lengths:
245-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]