GgaINT0060213 @ galGal3
Intron Retention
Gene
ENSGALG00000009282 | C14orf43
Description
NA
Coordinates
chr5:28313204-28314294:+
Coord C1 exon
chr5:28313204-28313346
Coord A exon
chr5:28313347-28314184
Coord C2 exon
chr5:28314185-28314294
Length
838 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TTTGTTTGGTATCTCTGTGGGAA
3' ss Score
1.23
Exon sequences
Seq C1 exon
GCGTATAAATGTAGGAACTCGCTTTCAGGCAGAAATCCCTTCACTCCAAGACAGATCTCTGGCAGCAGCTGATGAACATAAAGCAGAGCTTGTGTGGCAGCCATGGGGTGACCTGGAAACCAACAGAGTCACCCAACAGAATG
Seq A exon
GTAAGAATGTGGAAGGCTGGTACATAGGGCTGAGTGCCACAGCTGTAGTAGAAGTAACCACATGTCTACTATAGACAGAACTTAAAATAGAGCTGCCAGTTATTATGACATATTTAAATGGTCTTGAAAGCAATCTTAGGAGTAAAACTTATTTTTCTGGATTGTATGTGGGGGGCTGGGAGGTTGATATGATTTTATTTATTAATTGAGATAAAATGAGATCATTATTACTAGTCAAAGAGAGATTTGCATTCAATGAAACTTCCTTGTCTTTGTTAACATTTAAATGCCACGTGTAGTCAACTTTTAAACTGATGCTCTAGATGTAATAGTATTTGGGAAAATCAAGTTGTAGACATTAGGAGGAGGAAGCAGAAGCTGTGGCCTAGTTAGCAGACTGAGTAGCTTTCTACTTTTGGTGCACGCAGGCTGTGGCATGTAGAGATGCTGAAGAGGGAATGTGGGTGGTCTTGGAAGAATTTTTTCTTGATAAGGAGAAGAGGGGTATTATGAAATGAAAACTGTGTAAAGATCACAGAATAGAGGGGGGATTAAAAAATCTGAGGTGAAGGGAGATTGAAGACATTACAGGAGATGAAAGTTGCAAAAAAATTCCATGTATAAATAGTGCCGTGTGTGGCACTCTGCTCTGTGACCTCTCAGTCTAGTGAATTCCTTTGTCCAAATCTGACCCAAGTAAATTTGCAAGGTCACTCATCATCTTGGTTTTATCTTCTGTTATGTCTACTTCTGCTTCAAAAGATCTAATTAGTCATGTGAATTCTCTAGGAAACTTGATTTTAATCTTCTAATCTCAATTTGTTTGGTATCTCTGTGG
Seq C2 exon
GAATAGTGGAAAGCCTGCTAGCTGCTGCCTGCTCAAGCATTTTTCCTGGGGGTGGAACCAACCAGGAGCTGGCACTGCATTTCTTACATGAAGAAAAGGGAAGCGTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009282:ENSGALT00000015102:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0144819=ELM2=PU(76.7=93.9)
A:
NA
C2:
PF0144819=ELM2=PD(21.7=35.1)
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:
AATGTAGGAACTCGCTTTCAGGC
R:
CAGAACGCTTCCCTTTTCTTCA
Band lengths:
246-1084
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]