GgaINT0144389 @ galGal3
Intron Retention
Gene
ENSGALG00000000458 | F1NP62_CHICK
Description
NA
Coordinates
chr28:608295-609284:+
Coord C1 exon
chr28:608295-608431
Coord A exon
chr28:608432-608926
Coord C2 exon
chr28:608927-609284
Length
495 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TGGCCTTGCTTCTTCCCCAGGGA
3' ss Score
9.72
Exon sequences
Seq C1 exon
TCACCATGTCTGAGAGCCTGCAGAAAGCCTCTGTGGGCATCATAGATCAGAAGACCTGCAACTTCCTCTACAACTTCTCCCTCACTGAGCGGATGATCTGCGCTGGTTTCCTGGAGGGGAAGATTGACTCATGCCAG
Seq A exon
GTAAGAGCCTGGGATTTTTCCACTCCTCTGCAGCTTGCTGCTGTGCTACCTCAACAGCCTCAGCACGGCACTGGGAAATATTCACCGAGCCTCCCATGTGTAGCTTAGCTTAAAAGCACAGCCTACTCTCCTGCAACTTTAAAAAAGCAAACCAAGGTCCATCAAATTAAGCATGACTTAAAGCAGTTCCATCCTGCTGCCCCATCTGGGCTGCCAGCAACCCTGGATGAAGCTGGATGTGACTCCCCTCCACTTGCAGAAAGGTGCTGTCAGACATTGGCATTCCTGACAAACACCACTTTGCAGCCAGGCTGAGCCATTGGCACCAGTTTCAGCCTCTGGGCAGTCATGTCGTGCACACAGTGCATGGGAGCAGAGCCCCTCAGGGCTAGAAGGAGAACGAGAGGTTAGCTCGTGGTGTGGCAGAGGAGCAGTTCTGTGCACATCTCTGCTGGAGACGTGGGCTGAGCAGCCATGGCCTTGCTTCTTCCCCAG
Seq C2 exon
GGAGATTCAGGAGGGCCCTTGGCCTGCGAGGTCACCCCGGGCGTGTTTTATCTGGCTGGCATCGTGAGCTGGGGAATTGGATGTGCCCAGGCCAAGAAACCTGGCGTGTACTCCAGAATTACCAAACTCAACGACTGGATCCTGGATACCATCTCGCAGTTTCCCGGTCCCAGCACAGGCGCTCCTTCCACTTCAGCCACCGCCAGAACTACTGCAGATATCCTCACGCTCCGTCCCAGCACAACAGCTACAGGTCCCATCAGTGAAACCACCCCGAGTGAGAAGGCTGCCACCACCGTGCAAGAAACCTCCACAGCTCTGAAATCCACTGAGCCTGCCAAGCCCACCCAGGCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:13
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=0.483
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.7=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.2=38.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTTTCCTGGAGGGGAAGA
R:
AGCTGTGGAGGTTTCTTGCAC
Band lengths:
353-848
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]