GgaINT0144384 @ galGal3
Intron Retention
Gene
ENSGALG00000000458 | F1NP62_CHICK
Description
NA
Coordinates
chr28:604760-605851:+
Coord C1 exon
chr28:604760-605078
Coord A exon
chr28:605079-605732
Coord C2 exon
chr28:605733-605851
Length
654 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
ACGTTTTGGCTTTCGTTCAGAGT
3' ss Score
6.45
Exon sequences
Seq C1 exon
GGGGACTCCGGTGGGCCGCTGGTTTGTGAAGAACCATCTGGCAAGTTTTTCCTGGCAGGAATCGTGAGCTGGGGAATAGGATGTGCTGAAGCCAGGCGGCCAGGGGTTTACACACGCGTTACCAAACTGAGAGACTGGATCTTGGATGCTATTTCTCCCTTTCCCACCTCCATAACACGCACCGTCCCACTAACACACTCCAGTACTAACAGTAACGTGGTCACACCTGAAGAACTCAGCGCCACCACCAGCACAGCAATCCCCACCTCTTCACCAGCCCTGGCTGCCAGCAAACCAGCAACTGCACCCAGACCACAAG
Seq A exon
GTATGAACACCCAGGGGGTGGGTGTGAGCTCAGGAAGAGGAGCAGCCGGCACATGTGTGAGTGCAAGGTCTGTCCTTCCACTGAGCTGGTAGCTGACCCACACAACCATTGTATGGCACTCAGTGCCTGCACAGCTGGGTGTCATGGGCTCCTTTACCTGTGCAACCAAACAGGCAGCTGTGTGCCCAGCACTGTCTGACACTGCGTAACTCTTTGATCACTCGCTTCTCTTTGCCACGTGGAACTTCCCAGAAGTTCAAAACTGGTAGCTGCAAACCCAGCAGCAGCCACGCATCGTCCCACTTAGGTGCCCTTTGGGAAGGAAGCGTGACTTGTCAGCTCCGAGAAGCTCAGCAGGGAGAAACAGATGTAAGCTATATTTCTGAATTTAGGATTGACCTTCTTACCTAGAATAGCAGGCACAGAGCTGCTGGTCACACTGCCTTTGAGAAAGGCGTAGGCCTGAGAACTTGCTAAGAACAAGCTGTGTGTGCGGTGAAAGCCCACATAGAGCTTCCAGGGATCCCATGGTCAACAGGCATGGGCAGCTGTCCCCATCTTCAGCTCAGCCTTACTGCTTAGAGAGAGCCAAAGCCTCTGCTCGCTTCTCTCCTGCTAGGAGTACTCACAGGTCACGTTTTGGCTTTCGTTCAG
Seq C2 exon
AGTGCGGAGGACGACCTGGCCTATCTAAACCCAACAAGATTGTGGGAGGAACCGATGCTTCCAGAGGGGAGATCCCCTGGCAGGTCAGCCTGCAGGAAGACTCGATGCATTTCTGTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.411 A=NA C2=0.450
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(20.1=43.0)
A:
NA
C2:
PF0008921=Trypsin=PU(11.4=65.0)
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:
TCTGGCAAGTTTTTCCTGGCA
R:
GGATCTCCCCTCTGGAAGCAT
Band lengths:
358-1012
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]