GgaINT0081295 @ galGal3
Intron Retention
Gene
ENSGALG00000013635 | SCAF8
Description
NA
Coordinates
chr3:52248157-52250194:+
Coord C1 exon
chr3:52248157-52248257
Coord A exon
chr3:52248258-52250080
Coord C2 exon
chr3:52250081-52250194
Length
1823 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
CTGATTTTTGTTTTCAATAGATG
3' ss Score
9.39
Exon sequences
Seq C1 exon
TTTGCAGCACTACTCTTTGGGTAGGCCAAGTAGACAAGAAGGCTACACAGCAAGATTTGACCAACTTATTTGAAGAATTTGGACAAATAGAATCTATTAAT
Seq A exon
GTAAGTGAGCATGTTGTCATCCATTTTCAAGGATTTTAAGCAACTTAAACATACTTATGCCTCTGGATTCCTTTTTAGCCTAAGCTTGTGTTTAGGTGATTGTTACATTTTTTTTTAATCACTGTTTAAAAACTGTAGCTATGATATTTCCTTGTTAGTTTTTGTGTACTTTTGTTTGAGGCACTGAAGATAGCATGCTTCATGGTAAAATGACTTTGCCCTGACAAAAGGTAGGGTTGCACAGTTTTAAAAGTTTAAAAAACTTTTTTTGAAGCTGGCTCTTAACAAGTACAAGGTTGTGCCTTTTCACTTTATGTGTTGAGACACAGGAGTAGAGATTGTTTTTCCTTTCACTGATTGACAGAGTGTGATGTGATGTCCACGTTGGCTTGGTTATGTATGTGTGTAGCGGTGCTAAATGGCAGTCAGTGTATCTGAAATATTTATGAAAAGATACATAGTACTGTAAACGAGTGTATTTATAAAATGTGACCATAAAAGCATGCTTTCATTAGGAGCTGTATTTCTCATGATTTAGAATAATTTAGATTTAGTCTAGTAGAATCATAGAATGGCTTAAGTTGAAAGGGACCTTAAAGATCATCTAGTTCCAACTTCCTGCTGTGGATAGGGTTGCCAACCACTAGATCAGGCTACCTAGAATCCCATCCAACCTGTCCTCAAATACCTCTGAGGAGGAGGCTTATACGATTTCTTTGAGCAATGTGTTCCAGTGCCTCACCAACCACTGAGTAAAGAATTTTTTTGTAACATCTAGCCTAAATTTTCCCTCTATTAGTTTAAAGCCATTCTCCCTTGTCCTATCACTATTAGATGATGTAGAAAGCCAGTCCCCCTCCTGCTTTTAAGTACTGGAAAGCTGCAGTGAGGTCACTCCAGAGTCTTCTCTTCTCCAAGCTAAACGAGCCCAGCATTTTCAACGTTTCTTCGTAAGAGAGGTGCTTCTCTCTTTGATCCTTTGATCACCTTTGTGGCCCTTTCCTGGACCTGCTTCATCACCTCTGCATCTTTCTAGTGCTGGGGACCTCTCCAGATGGGGCCTCACAAAGTCAGAGTAGAGAGGGACAGTCACCTCCTTGGCTCTGCTGGCTATCCCTCTTTTGATGCAGTCCAGAATACTGTTGGCCTTCCAGGCTTCAAGGGCACGCTGCTGGCTGATGTCCAGTTTTTTATCCACCAGGATTGCCAAGTCCTTCTCTGAAGGGCTGCTCTCAGTGAGTTCCTCTCCCAGTCTGTATGCATACCTGGGATTGCCCAAGCCAATGTATACCTTGCATTTGGCCTTGTTGAACCTCATTAGGTTCATGTGGATCCACTCTGGATGGCATCCCTCTCTTCTATTGCATCAACTGTACCACTCAGCTTGGTGCCATCAGCAAACTTGCTGACTGTGCACTCGATCCCACTGTGTCACTGGCCACAAGTGAAGACTGAGGCAAAGAACTTGTTGAGTACCTCACAGTTTTTGGAGTTTAATGAGAGATAGTGACCTCTGCTTTTCTGAATTTGCCATAGCATCTCTCACTTGCCTGCTGCTTGTCATTTAAATCTGTCATGCTGCTTTTAGCACCCGTTCTTCAGCTTGCTGCTGCTTCTTGGAGACGTTGTAACTGTTGTACTCTACCAACTTCCCTCTTAGATCTTGCTGATGCTCAGAATTATTAATTATGCTTATTACAGTGATTGTTATCTACAGTATAAGCCCCTCCTTTTTTTTTCTATTGTAGTGTTTAGTGTAGATACGTAATCTGAAAGTACTATTTTTCCTGCTTTTTAAGACCACTGATTTTTGTTTTCAATAG
Seq C2 exon
ATGATTCCCCCAAGAGGTTGTGCGTATGTCTGCATGGTTCATAGACAAGATGCATATCGTGCTCTTCAGAAGCTTAGTTCTGGGTCCTACAAAATCGGATCTAAAATTATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013635:ENSGALT00000022182:13
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:
PF0007617=RRM_1=PU(41.8=82.4)
A:
NA
C2:
PF0007617=RRM_1=FE(55.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGCAGCACTACTCTTTGGGT
R:
TTTAGATCCGATTTTGTAGGACCCA
Band lengths:
206-2029
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]