GgaINT0078393 @ galGal3
Intron Retention
Gene
ENSGALG00000004293 | F1NWX6_CHICK
Description
NA
Coordinates
chr3:47280327-47281273:+
Coord C1 exon
chr3:47280327-47280447
Coord A exon
chr3:47280448-47281198
Coord C2 exon
chr3:47281199-47281273
Length
751 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
GTCTTTCTGCTCTATTACAGTTA
3' ss Score
9.26
Exon sequences
Seq C1 exon
CTCCTGCTCAGTATGAGTGTGGGAAGGCCAAGGTCAGACCAAAGCTGTGTGCTCAAAGGATTGTTGCTGGGTGTATTTCACATCCACACTCTTGGCCCTGGCAAATCAGTCTCCGGACAAG
Seq A exon
GTACAGCCACTCCTCATTGCATGAGGCTTTACAATCAAGACAGGTTTGCATCTCACAGGATGTTTGTATGTGGTTGTAACACCCTAAAGAGAAATGTGTTATGTATTTAAAAATAGTAGAAGGATTAAATGCCTCTATGCTAAAAGTTGAAAATAAACTTTATTAAGCTATTTATTTATTGCAAATTAGACTGTGTTTGCTAATCTTAAAGAAGGCAATTTAGTTAACCAAGAATGCTCTTTTTTATGACAAATACCTACAGAATAAACACAACTGGTAATTTGAAAAATGCTATCATTTCACTGTAAGGAAGAATGAATTTAAACCTGTCACTATGTCCCCCCGTAGAGTCAATGTCCTAAAAGTAGTGGAAGCTGTCTGAAATATGGTGTTGATCAGAAACCAAGTCCAGTTCCAAAGCCTTTTGACTGGGATCAGGTCTGGATAAAAGCCATAATCTCTCATAAGATATACGTTGGTGCATATTAGTTTTTCCAGTAGTAAAAGTACTGGTCAAGGGCAAAAAAATATAGTTGTTTTCATCATAGAAGTGTATACACAACACTCCTGTCATTGCAAAAAATATTGTTCAAGGAAAGGGAAGAATTTTGTTCCAAATAAAAATGCAGAATAAGTTCTTCAGTTTGTAAAGGTGATGCTGGAAGGATTACCTGATGAACTACAGTGATCTGCAGCTGACTTCCCCACCTTAAACCCATGCTTTTTTTCATGTCTTTCTGCTCTATTACAG
Seq C2 exon
TTATGGCTTGCATTTCTGTGGGGGAACACTGATAGACCCAAAGTGGGTTCTTACTGCTGCTCACTGCTTAGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004293:ENSGALT00000006829:15
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:
PF0008921=Trypsin=PU(9.0=48.8)
A:
NA
C2:
PF0008921=Trypsin=FE(11.2=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:
CCTGCTCAGTATGAGTGTGGG
R:
TGAGCAGCAGTAAGAACCCAC
Band lengths:
182-933
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]