GgaINT0109133 @ galGal3
Intron Retention
Gene
ENSGALG00000008309 | CCDC146
Description
NA
Coordinates
chr1:13712407-13713266:-
Coord C1 exon
chr1:13713090-13713266
Coord A exon
chr1:13712481-13713089
Coord C2 exon
chr1:13712407-13712480
Length
609 bp
Sequences
Splice sites
5' ss Seq
AAAGTAACA
5' ss Score
1.87
3' ss Seq
CCTCTCTCTTTTGTTGCTAGGAT
3' ss Score
9.26
Exon sequences
Seq C1 exon
GAAGCAGATAAGAAAATGAGAAAAATGAAAGAGGAGTGTGATGAGCTCCACAAAGAAGTAATCCAAAGGAAAGCAGAAGTTAATGCAATGAAAGAAGACATTTCATCCAAGCAGGAGCTGATGCTAATAGATAAGAAGGAAGTGGAAAAGCTTCTGGAGGACCAGGATAGTTTAAAA
Seq A exon
GTAACACAAAATTAATTATGCACATATCTTCATGTTTGTGCATCTATGTGTGTGTGGGTGTGGCCTGCTTTTGTCTAAGGATGCAGTGAATCTACTGGATGTTGCTTGTCATTCCAAATCATTTAATGGCATTACAGTATGGATTTCATCATTTTCCAATAAGCGTGAGATATACTGCTGTCCCACATTCACTATTATTCCTGTAGGAAATAATAGTAGTCATGGTTTTGATTAAAAATGCTTTCCAGAATGCCATGTTCTATGTTGTGTTATTGTAGGCTCCTCTAACACATCCAACTTTGGACAGATTTGTCCAGAGAACTTAAAAAAACGCACCCAGGCGCAAAGCGTCTCTCCTTTCCGTGGTATGGATAACATATGCAGACATTAATAGCATCCAAGTGTGAATCTTGTTTTTCAGACATAACGACATGGTAAATAACACAGTAATTATTTTCAAAAGCAGCAGCTACAACTCCCTCTGATAAGCTCAAATAATTTCAAAACACGTTTCTGGCCAAGTTTCACAGCAGTTCTGAATGAGTATTAATTCTGTGAAATCACCCACACTGTGAGGCTATGAACCTAACCTCTCTCTTTTGTTGCTAG
Seq C2 exon
GATGAATTAGTTAAGATCCTTGGTGTTCCAGTGCAACTTAAAAAAGAAGCTGAGAAGATAAATCAGAAAAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008309:ENSGALT00000013526:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.305 A=NA C2=0.160
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
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAGAAAAATGAAAGAGGAGTGTGA
R:
TTTTTAAGTTGCACTGGAACACCA
Band lengths:
206-815
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]