GgaINT0072437 @ galGal3
Intron Retention
Gene
ENSGALG00000011792 | F1NMD1_CHICK
Description
NA
Coordinates
chr4:53217589-53218272:-
Coord C1 exon
chr4:53218092-53218272
Coord A exon
chr4:53217855-53218091
Coord C2 exon
chr4:53217589-53217854
Length
237 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TAATTGCCAATGTGTTTCAGAGA
3' ss Score
4.93
Exon sequences
Seq C1 exon
TCTGTGGAATACGAAAGGAGGCATTCTCCTTCACAGGAGTGGAAAGAATAACTGATGGACAGCGTGCACGGGATGGAGAATGGCCATGGCAGGCTAGTATTCAGCTCGATGGGACACATTACTGCGGTGCGTCGGTGATCAGTAATACGTGGCTAGTGACTGCAGCCCACTGCTTTAAAGG
Seq A exon
GTAAGTTATTAGCACCCTTCTGATCCTGTAGGACCTACAACTTCAGGTTGCTCTGATAAATCTACTCTGACTTTTCATGAACCACTAATGCCTTTATCTGCTGGAAGACAATGAAGCTCGGCTCTTCTCTGTTCTGTAGACAGTCCTGACCATGTGACATTTTTCTTAAACAGAAAGCTTTGTTTCTATGGAAATCTTTTTTTGTGTGCTTGTGACATAATTGCCAATGTGTTTCAG
Seq C2 exon
AGAAAGAGAACCTCGGAGATGGACTGCCAGCTTTGGAACTCTGTTGAGACCTCCAAAACAGAGAAAATATGTCCGAAGAATTATCATTCATGAAAAATACGATGGCTTTGTCCCTGATCATGAGTATGATATAGCTCTTGTGGAACTTGCCTCCTCTATTGAGTTCACAAGTGATGTGCACAGTGTCTGTCTTCCTGAAGCATCTTACATATTACGGGATAATACTTCCTGTTTTGTCTCAGGTTGGGGAGCTTTGAAGAATGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011792:ENSGALT00000019237:6
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(19.3=72.1)
A:
NA
C2:
PF0008921=Trypsin=FE(39.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGGAGAATGGCCATGGCAG
R:
GGAAGACAGACACTGTGCACA
Band lengths:
305-542
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]