GgaINT0125518 @ galGal3
Intron Retention
Gene
ENSGALG00000004604 | CCBL1
Description
NA
Coordinates
chr17:5915660-5916093:-
Coord C1 exon
chr17:5915965-5916093
Coord A exon
chr17:5915781-5915964
Coord C2 exon
chr17:5915660-5915780
Length
184 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
CCGCTCCCTGCCTGCTGCAGGTG
3' ss Score
9.53
Exon sequences
Seq C1 exon
AAAGCTCCAAAAGAAGGAAAATTGATGTCGAGTGCAGATTGGCAGCTGGACCCGGCCGAACTGGCTTCTAAATTCAGTGAGCAGACAAAAGCCATCGTCCTGAACTCACCCAACAACCCTCTGGGCAAG
Seq A exon
GTAATGCCTCTGGCTTATGGGGACAGCCCTGAGAGAGCATTGGGCTGCTTCAGCTCATCCAGCCCCGTCTGAGGTGCAGCAGCAATTCCACTTTCCTGACACACAAGGAAGAGCGCTCTGTGGGAGCACTGTGTGCTCAGAGCTGCTCGTGCTGCGTCTCAGCTCCGCTCCCTGCCTGCTGCAG
Seq C2 exon
GTGTTCAGCCGAGGGGAGCTGGAGCTCATTGCAGACCTGTGCGTGAAGCACGACGCCCTTTGCATCAGCGATGAAGTGTACGAGTGGCTGGTGTACGACGGCAAGCAGCACATCCGCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004604:ENSGALT00000007326:7
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(10.8=100)
A:
NA
C2:
PF0015516=Aminotran_1_2=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTCCAAAAGAAGGAAAATTGATGT
R:
GGATGTGCTGCTTGCCGTC
Band lengths:
242-426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]