GgaINT0109138 @ galGal3
Intron Retention
Gene
ENSGALG00000008309 | CCDC146
Description
NA
Coordinates
chr1:13704309-13706020:-
Coord C1 exon
chr1:13705850-13706020
Coord A exon
chr1:13704398-13705849
Coord C2 exon
chr1:13704309-13704397
Length
1452 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
GAACTCCATTTAAATTTCAGATA
3' ss Score
7.05
Exon sequences
Seq C1 exon
GAGATGGTATCGGATACGGACGCCCGCAGGTTAGAGGAATGTATTGCTGAAGAAGGCCGGCTGTTCAAGGAGCAGGAGAAATGCCGCAGTGAGTTATCCAGACTTGCACATCTGACGTGGCTCAAAGTTGAAGAGAAGGAACAGAAATCCAGGGAAGTTCAGAAAGTCCAG
Seq A exon
GTAAAAAAATCTCATATAATTGAAAGTCTGCTCTAAAGCAAAAGTTGCTACGTGAAGAAATAAAATCACTGATGAGAGGAACCTTATAGACTCTCACTTCCCACTGTACTTCAAAGATCTATCACAACTGTCCCTGTTCATTGCAGGGGAGTTGGACCAGATGACCTTTAAAGGTCCCTTCCAACTCTAAGGATTCTATGGTACTGTGGTTAGGCTGCGGTTGGACTTGATGATCTTTGAGGTCCTTTCCAACCTGAATTATTCTGTGATTCTATGATTAACACAGGAAGCTCATAATACTCTGCTAGTTTGGTGGCAATTTACAGTGCCGTACAACAGTGCACTAAAATATCACACTACAGTTGAAATAAGGTGTTTGAAAGCATGATTTCTTTCAAGCCTACAGAATAAAATGAACAATCATGGAAGAGGCAGAAATTCAGATAGCCTCAACTGAGATCCTTGGATGTACAAGAAGGTTGTTTTGTTTCGCAAATATATTGACATCAGAACTACTATTCACTCGAAGGAGAGACACCAATTCTTATTTTCCTGATACACTTCAATATATAAATCAGTCTATTAACTTGAAGGAAGAGGGAAAAATCCCCTGTTCTTCTGACTAAATAACAGGAACAAACTATTTACACTTCCATAATGTATTAAAATAAATTGTAAATCTGTATTAAAATAAATTGGACTGGCCACCATTATAGTATGTTGTGAATTATTGACTGTCAATAGAAATAGTCAAAGGAGCAGTTCAGGCTTTGCAAATTCAATAAAAATAAGCTCATAAACAGAACAAATCATTAAGAATATAATTTTGTTAACAAACACTCCTGCCCGGAACTGCAACCAGACATCCACCAGCTTTTCTAATGCCTATATTCTCCTCTTGATATCAGTAGGAGATGTGAGAAGGTTTGTCCATTGAATGTTAACGACACAAACTAGTAAGGACTGAACAGAACTGAAATCAGATGTGCAGAGCCCTAACGAAGTGTAAATGTGCCATGTCACTCAATCACCAGTGACTACTGAGAAGGTAGAGAAAGTAAAAAAAGAAAAGAAAAAAAATTCTTTAAAAAAGTGCATCATAAATTCAAGGTAAAACTCCAGCAGTGCATATGCACAACTACATCATGATGGAACTGTTTAATAATGTTTAATAGAAACAGTAGAACTACAGATAGCAGAGATCATTCATTTCAAGATGAGCATGAAATAAATTATCTACATTTTTAGCAGTCATCATAAGACTTGTATTGTATATACAGAGAGACTGTGTTTCTTAGTGTTATTACAGTAAAAGCATTTCATTGTAATTAGAATAAATTCTTGGAAGAATTTTGCCTGTATTTTCATCATCTAAGAGAGCTGTTCTGTTTCTCTTTGAAGATTTTGCTTTGAAAAATCTAAAGTGCGTACTGAACTCCATTTAAATTTCAG
Seq C2 exon
ATACAACTTCAAAATATTATTAAAGAAATAAAAAGAAAGGATCTTGAAATAGAAGAGTATAAAAAGAGGAAAAGAAGAGTCCATAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008309:ENSGALT00000013526:11
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=0.000
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCAGGTTAGAGGAATGTATTGCT
R:
TGTTTATGGACTCTTCTTTTCCTCT
Band lengths:
236-1688
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]