GgaINT0143492 @ galGal3
Intron Retention
Gene
ENSGALG00000000379 | F1NS08_CHICK
Description
NA
Coordinates
chr27:2219211-2220199:+
Coord C1 exon
chr27:2219211-2219345
Coord A exon
chr27:2219346-2219769
Coord C2 exon
chr27:2219770-2220199
Length
424 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
ACGCACCTTTCTGCCCCCAGGTG
3' ss Score
11.61
Exon sequences
Seq C1 exon
AAAATCCGCTCCAAGGTAGAACTGGAGGTGCGTGACCTTCCTGAAGAGCTGTCCCTGTCCTTCAATGCCACCTGCCTCAACGACGAGGTCATCACTGGGCTCAAGTCCTGCATGGGGCTCAAGATTGGGGACACG
Seq A exon
GTGAGGCTCCTGTCTGGGGACTGCTTTTCTCTCTCTACATAGTGGTGCTGAGAGCTCACCTGACACTCTGAACCTGCACTGTCTGCTCCCCTGCCACCTCCTGGGTAGCACAAGTTCTTGCAGGGGAAATCAAGATATCTGCTTAGCAGAGAGAGGGTCCAGCTGGGTGAGAGCAAGGGGGAAAAATGCTTATCAGAGTCCACCGGATGCAGAATCTGTGGTCTTTCTTGTTGCTTATGGACTGAATTTTGCCTAGATACTGTAGTGGGCAAGTGTCCTGCTCGATGCTGGGACAGCTTTGAGAAGCCGTAAGGGTCTTGGTCAGTGCCATTTCTGGGCTGGCTGAGCTTGTGGAGTAGGCTGCAATGGGAACCCCAACACTGCATGGGGGTACCAACACCTGGACGCACCTTTCTGCCCCCAG
Seq C2 exon
GTGAGCTTCAGCATCGAGGCCAAGGTGCGAGGCTGCCCACAGGAGCGTCAGAAATCCTTCACCATCAAACCTGTGGGCTTCAAGGACAGCTTGACCGTGGTGGTGAACTTTGACTGCAACTGTTCCTGCGAGAGCCAGGCCGAGGCCAACAGCTCCTTCTGCAGCAAAGGCAATGGCAGCCTGGAGTGCGGGGTGTGCCGCTGCAACCCGGGGCGCCTGGGCTCACACTGCGAGTGCTCAGAGGAGGAGTACAACCCCTCAGAGCAGGACAACTGCAGCCCACAGCCAGGACAGCCCCTCTGCAGCCAGCGTGGCGAGTGCATCTGTGGGCAGTGCGTGTGCCATGGCAGTGACTTTGGCAAGGTGACGGGCAAGTACTGCGAGTGCGACGACTTCTCCTGTGTCCGCTTCAAAGGCCAGATGTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000379:ENSGALT00000000519:9
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:
PF0036213=Integrin_beta=FE(10.4=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.5=27.8),PF079748=EGF_2=WD(100=25.0),PF079748=EGF_2=PU(32.3=6.9)
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:
CTGTCCCTGTCCTTCAATGCC
R:
TGCTCTGAGGGGTTGTACTCC
Band lengths:
353-777
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]