GgaINT0109141 @ galGal3
Intron Retention
Gene
ENSGALG00000008309 | CCDC146
Description
NA
Coordinates
chr1:13700895-13701973:-
Coord C1 exon
chr1:13701749-13701973
Coord A exon
chr1:13701124-13701748
Coord C2 exon
chr1:13700895-13701123
Length
625 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGC
5' ss Score
9.4
3' ss Seq
TCACTTGGGACTCATTGCAGCGG
3' ss Score
5.89
Exon sequences
Seq C1 exon
AGAACTGCAGAAACAACACATGAAAAATAAAAATAACGCAGCAATTAAAGAGAGTCTCAAAAATGATTGTTCCAAAGTCGCACAAGTCATGTATGAAATGAATGAAAAGAAAAAGCAACAGGTTTTGGATCTTGACGGACTTACCAATGCAGTCACCCGCATTGAAGAGGAAATTGCACAACTGCACAAGAAGTACAAGAGAGCCACTGAGGAACAAACTGAGAG
Seq A exon
GTACGCGTGTAAGTGTGATGCAATAAAGTGGGTCATTTTGAAATTCATGAATTGATACTTTTCAATTTTGGAGCAAGTCTAACCAAGAACACTAAGGGCACCTTCACTCCGGTGCCCCGCAAGCAGCCTGCCCCACTGCAATGCCAGTACTGCTGTGTGTCATGGACGTGTGTGTTGGTTCTCCACTGCTGGAGACATTCATTCTTCAGAACTCTTACAGAACAGCACCGTACCTTGTCTGCTGAATGCCTTGAGAGCTTGTAGCCTCTGCTCTCTGTTTGCGCTTTGTGCAATACTCTCATGTGGAAGTGCAGAGAAAAGCTCTCTGATTGCATTTCTCCATTTTCCAAATCAATGCTGTAGGAGGCAAAAAAAAGCTTGTAGCAATGGTATGAAGGACCAAAGCAATCTTGGTAACTGTGTTGTCCAATTTTCAGCTTGTAATTCTTTTGTCCTCTTTTAAAATTGCTATAACGATATTAAAATAGCATCTGTGAAATCTTGCTATATTTCCCAGATTATTGCTGTCATTTTTAAAATCTGCCTTTTATGTTCTTGAATGGAATACACTGAATACCAACCAAAATTTTAAAAAATCTACCTTTTCACTTGGGACTCATTGCAG
Seq C2 exon
CGGCCTTCTGCTTAGAAGTCGAGAAGAAGAAATATGTATTTTATATGAAAAAATAAATGCACAAGAGTTTTTGTGTAGAAAAGGAGATATTGAGATGCAAGCTACGGATGAAAAGATCAGTTTTCTGAAGATGAAGGTGGCTGAGAAAGAGAGACAGATCAAATTCTGGCTCAAAGCACTCCCAATGAAGAGAGTCCTGGACGCAGAGTTGGTCGTACTTCAGATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008309:ENSGALT00000013526:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.224 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF085815=Tup_N=PD(28.4=27.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTCCAAAGTCGCACAAGTCA
R:
ATTGGGAGTGCTTTGAGCCAG
Band lengths:
344-969
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]