GgaINT0144381 @ galGal3
Intron Retention
Gene
ENSGALG00000000458 | F1NP62_CHICK
Description
NA
Coordinates
chr28:603326-603971:+
Coord C1 exon
chr28:603326-603497
Coord A exon
chr28:603498-603696
Coord C2 exon
chr28:603697-603971
Length
199 bp
Sequences
Splice sites
5' ss Seq
CGAGTAAGT
5' ss Score
10.15
3' ss Seq
CCCAGCTGTTCCTCTTCCAGGTT
3' ss Score
10.59
Exon sequences
Seq C1 exon
ACTGTGGGAGCCGCCCTGCCATGCAGACTGCCAGCAGGATAGTCGGAGGCACAGAGGCATCCAGAGGGGAGTTCCCCTGGCAGGTCAGCCTGCGAGAGAACAACGAGCATTTCTGTGGTGCTGCAATCCTCACGGAGAAGTGGCTGGTGTCTGCTGCTCACTGCTTTACCGA
Seq A exon
GTAAGTCTTAGCCATGCTAGCTTCCCAAACGCTGGTGTATCTTCTGGCCCAGGCCCCCACTGCACCATGCTGCTCCATCAAGCATCACGCTGCAGGGAGCCCATGTCCCAGAGCAGACAGCAGGACTCGCAGCAGTTGGCACTGCCTGGGTGCGGGGCGATGCTGCAGGGCTGCACAGTCCCAGCTGTTCCTCTTCCAG
Seq C2 exon
GTTCCAGGACCCGGCCATGTGGGCAGCGTACGCAGGGACCACCTCCATCAGTGGTGCAGACAGCAGTGCAGTGAAAATGGGCATCGCCCGGATCATCCCTCACCCCTCCTACAACACTGACACGGCCGACTACGACGTGGCCGTGCTGGAGCTGAAGAGACCCGTGACCTTCACTAAGTACATCCAGCCCGTGTGCCTGCCACATGCTGGGCATCACTTCCCTACCAACAAGAAGTGCCTGATCTCTGGCTGGGGATACCTCAAGGAGGATTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.121 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.2=75.9)
A:
NA
C2:
PF0008921=Trypsin=FE(40.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGATAGTCGGAGGCACAGA
R:
AGTGTTGTAGGAGGGGTGAGG
Band lengths:
256-455
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]