GgaINT0060216 @ galGal3
Intron Retention
Gene
ENSGALG00000009282 | C14orf43
Description
NA
Coordinates
chr5:28316418-28317815:+
Coord C1 exon
chr5:28316418-28316506
Coord A exon
chr5:28316507-28317665
Coord C2 exon
chr5:28317666-28317815
Length
1159 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTATGTTTTCCAAACACCAGATA
3' ss Score
4.31
Exon sequences
Seq C1 exon
GATCAGACAGTTGGAAAGTTGCTGAAAAGAAGCTTTTCAACAAAGGCATTGCAATCTACAAGAAGGACTTTTTCTTGGTCCAAAAGCTG
Seq A exon
GTGAGTGTTTTACTGTTGCTGTTTTTTACGGCAATGATATCTTCTAATGTTTGAACATTTAATACAGGAGATTAAATCCTGATTTTTTTTTTTTGAAACCTCAGTATTAAGCACTCAGAAGATTTTTGTAGAGAAATGTTACAATCCAACACAGCACAAAATCTCACCAGAGACAGCTAGAACAATAGTGGTTGGGTTGGTTTTTTGGGGTTTTTTTTTGCTGTTGTTGTTTACTCATCCCTTGTACTTTCTGCACTGCTTCCATTAGTCCACATAGTGCAGATATTGCTTCCACGGGGCATATTTATAGAGTACTGGTGATGTTCCAGTACAGCTTAAAAGGCTTACTTATAAAACTAAATAGAAATACATCCTTGTTGCTGATGAAAAGGACCAAAGAAGGATATGTGAATGATGCATCCTTTTGTTCTGTTTGCTGTGACGCTGATATTTAAAATGATCGTTCCTGTGCATATTCCATGAGATGTGACACCTCAGTGGAAGGAAAGCACTTGAAGGACTTGGAGCATAGAATCAGGAGCTACATTTGTTTTCATTGAATAAAACGTCCAAAATGCATTTAAGTTGTAAAAGAATATACTCCCAAACTTTCAAAATAATCCCTGATAGAGAGTATGTAGGTGGTCATAGGTCTGTACTGATAATTGTCTATTGCCATATGTGTATGAAATGTGAAATGCATGTGGCCAAAACGGGAAAGTGCTGCAAACCTTCCTTTCCATTTTTGGAACGGTATTCTGCTCTGGTCTTCTCTGAAGTGCTGCTGTAAAATAAAACTCTCCCATAAAACTGAAAGGCTGCTCTCAAGCCTGACAGCTCAATTGGAATGTTTCAGAGGTTAAGAGATGCAGTAAGCAGACAAAGTGCCAGATTCCGTCACCTTTACGTTGACCAGCTTTTCTTGGGAAGTTGGTCTTGTAGTCCTCAAAATGAATAGCATTGGCAGTAGGGAATGGGCTGTGGGATGGGGCACACAGGAGAAGAGAACATGGAAAATAAGGGTTTAACAGCAGTTGTGGAATTGAGACTGCTAGGGAAAGAAAAGCACAAAGTGTACTAATTGCACCCTTAGTGATTGTTTATAAACCTTCTTAAAATCATTTAAATCCATTGTACCTTTATGTTTTCCAAACACCAG
Seq C2 exon
ATAAAAACCAAGACAGTGGCTCAGTGTGTGGAATTCTACTACACATATAAGAAACAAGTGAAAATTGGTCGGAATGGGACCTTAATTTTTGGAGACATAGATGTTGCTAATGAAAAGTCTGTGAGAGATGAAGCTGAAGTTGACATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009282:ENSGALT00000015102:8
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=0.010
Domain overlap (PFAM):
C1:
PF0024926=Myb_DNA-binding=PU(60.9=93.3)
A:
NA
C2:
PF0024926=Myb_DNA-binding=PD(34.8=32.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAGACAGTTGGAAAGTTGCTGA
R:
CTTGATGTCAACTTCAGCTTCATCT
Band lengths:
238-1397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]