GgaINT0125525 @ galGal3
Intron Retention
Gene
ENSGALG00000002855 | F1NBJ7_CHICK
Description
NA
Coordinates
chr17:7720402-7721469:-
Coord C1 exon
chr17:7721174-7721469
Coord A exon
chr17:7720581-7721173
Coord C2 exon
chr17:7720402-7720580
Length
593 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TCCCCCGCTGTCCCCCATAGGTT
3' ss Score
11.67
Exon sequences
Seq C1 exon
CCTGCGGGTGGCCGCCCTATGCCGCCTGCCAGCCCCCTGGAGATGCCCCCGACCCTACAGCAGCGCGATGGGACCCACGGCCGAGAAGAGCGTCCCCTACCAGAAGACACTGAAGGAGGAAAGCAATGGGAGCACGGGGCCCAGCCAACCACCCCCGGCCTCGGCTGAAGTGGTGGTGGTCGGGGGGGGCAGCCTGGGCTGTCAGACCACCTATCACCTGGCCAAGCTGGGCATCACCAACGTCGTCCTGCTGGAGAGGGATCGCCTGACGGCGGGCACCACCTGGCACACGGCTG
Seq A exon
GTGAGCTGCAGGGCTGGGAGCCTGTTATTGCTGTGTGTGACCTCACGCTGCACCAGGGGAGGTGCAGGTTGGATGCTGGGGAACATTTACTCTCCAAAAGAGCGGTGCTGCAGTGGCACAGCTGAACAGGGAGTGCTGGGGTCACCATCCCTGGGGTCCCCCATAAGCGCAGAGATGTGGCACTGAGGGACGTGGCAGTGGGTATGGAGGGGTGGGCTGGGGGATCTGAGAGGGCTTTTTCCAACCGTAACGATTCCACGATTGCTATTATTAATATCATTGCTATTCTTGTTAATCATATGCCAATTTTCTTTGGCAGGGAGGGGGGAAACTACAAGAGTTTAACTCAGCAGTCATTTTTGGGTGTTGTGGGTAATTCTCCATAGGGCCACCTCCCCCTCCCCCCTTTTCCCATTCATCCAACACCCGACCAGCCAAAAATCCATCATCTGTAGCGCTCCAAAGTAGCCACGAGATGGAGCAAGAGCCCCAGCGGGGTGACAGTGCCACGAGCGGGATGGGGAGGGAACCACGAGGCTGCCGGAGCTCCCATCTCGGCCCCCCTCGGCTCTGTCCCCCGCTGTCCCCCATAG
Seq C2 exon
GTTTGCTGTGGCAGCTCCGTCCCAGCGACGTGGAGGTGGAGCTGCTGGCGCACACGCGGGACGTGGTGAGCCGCGATCTGCCGGCCGAGACGGGGCTGCACACGGGCTGGGTGCAGAACGGGGGGCTCTTCATCGCCTCCAACAAGCAGCGCCTCGATGAGTACAAGCGGCTCATGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002855:ENSGALT00000004499:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.364 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0126619=DAO=PU(11.9=43.4)
A:
NA
C2:
PF0126619=DAO=FE(16.4=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:
CGTCCCCTACCAGAAGACACT
R:
TTGTTGGAGGCGATGAAGAGC
Band lengths:
351-944
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]