GgaINT0139187 @ galGal3
Intron Retention
Gene
ENSGALG00000001331 | F1NLW7_CHICK
Description
NA
Coordinates
chr24:1606883-1607740:+
Coord C1 exon
chr24:1606883-1607069
Coord A exon
chr24:1607070-1607465
Coord C2 exon
chr24:1607466-1607740
Length
396 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
3' ss Seq
GTACTCTGTGACTCCTGCAGCTA
3' ss Score
8.01
Exon sequences
Seq C1 exon
ACTGTGGGACCCGCTCCTACATTAAGAAATCACGGATCGTCGGTGGGCAGAACTCAGATGTGGGAGAGTGGCCGTGGCAGGTCAGCCTCCATGCCAAGAGCCAGGGCCACGTCTGTGGAGCTTCACTCATCTCAGAGACCTGGCTGGTGTCAGCAGCACATTGCTTCCTGGAGCTGCAAGGCATCCG
Seq A exon
GTAGGTGGGAGCTGGGACACTTTGTGCAGCAGGAAGACAGATCTCGGGGCTGCCTGGTTTAGCACTGTCAGAGAGAGGTGGATTTCGGGGAGAATCCTGTAGTGAAGTGGAAGCAGACAGTTGAAGTGCACTGTTTACCTGTTGAGGTGCCACATCAGTGCCACATGTGTTTGCAGGCACTGCAGTGATTGATAGGTGGTGGGATTTGGGCTGACAGGGCGCCCAGACAGCGGCACTTCCCTTTTCAGCCACTTCCTTGTCTGAATAAGGAGAAAGATTTGTAGAGGCATTTGTCAAGGAAACTTTTGAAGGTAACAGGCACGGTTTGTGAGCTGGGATGTCTGCTGGCTCTGCACAGCAGGACCTCACCCTGCCTGTACTCTGTGACTCCTGCAG
Seq C2 exon
CTACTCAGACGCCAGCCTGTGGACAGCCTACCTGGGCCTGACCAACCAAAGCAAACGCAACGATGCCAACGTGCAAATGAAGCAAATCAAGCGCATCATCTCCCACCGTTCCTTCAATGACTACACCTACGACTATGATATTGCTGTGATAGAGCTGCAGAGCCCCGTCACCTTCTCCGCTGTCGTCCAGCCCATCTGCCTGCCCGATTCTACGCACAACTTCCCCGTGGGCAAAGACCTGTGGGTGACCGGATGGGGAGCGACCGTGGAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001331:ENSGALT00000002027:15
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(21.3=79.4)
A:
NA
C2:
PF0008921=Trypsin=FE(39.1=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:
GTGGGCAGAACTCAGATGTGG
R:
GTAGAATCGGGCAGGCAGATG
Band lengths:
358-754
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]