GgaINT0127250 @ galGal3
Intron Retention
Gene
ENSGALG00000001183 | Q789A6_CHICK
Description
NA
Coordinates
chr18:1709259-1710134:-
Coord C1 exon
chr18:1709974-1710134
Coord A exon
chr18:1709368-1709973
Coord C2 exon
chr18:1709259-1709367
Length
606 bp
Sequences
Splice sites
5' ss Seq
AAAGTACGT
5' ss Score
7.99
3' ss Seq
TCTGCTTTCTCTGTCTTCAGGGC
3' ss Score
12.52
Exon sequences
Seq C1 exon
ATCAGAGCCTTGGAGCTGGACCCCAACTTATACAGAATTGGACAGAGCAAGATCTTTTTCCGAGCTGGTGTCTTGGCACACTTAGAGGAAGAACGAGACCTGAAGATCACAGATATTATCATCTTCTTCCAGGCAGTCTGCAGAGGATACCTGGCCAGAAA
Seq A exon
GTACGTGTGCTTTTGAGACTGGATTTTCTTGTGGTCATCTTAAGCCTCTTTGTTAGGGAGCTGGGCTTCAGCATTTCCATCTGAGGAGAGATTTTTCTTAAGAAAGCATGTTGCTTAAAATATTGTAGTTATGTCCAAGGTGAATAGATCACTTTTACCTACCCATTCTAACAATATCTCCTTTTCTTAACTTCACCTGTGTGACGCATGTAGCTGTTTACAGTATAGCTGGTGACTGCAAAAATCTCTCCTCGTGTTCCATAGGTTCTCAGAAGTAGTCTGGAAAGCTGTTTTTAAGTTAAAGGAGAGTTCATTGTTTAATTCACACTGATTTTATCTTTTTGAGAAAGAAGTCTGTTAACAGTAAGAACAAATAGCTTTTGTTGTTATTGTTCTGAAAGCAGTGACTCCAGCTCTTTCCTAGCCTTTTTAACATAAGGAATGAATACTCATAAGTCACATAGTCACCCAAACTCAAAAATAAACCTTTTATGGTCTACAAGTGTTCAAGGGTTGGGTAACCTTTAAAACAAGCAAGCAAAGCCCTTGACAGATGCTTTACTTAGCTGTATTTAACATTAAATGTTCTGCTTTCTCTGTCTTCAG
Seq C2 exon
GGCCTTTGCAAAGAAACAACAGCAACTGAGTGCACTGAAAATCCTGCAGAGGAATTGTGCTGCATATTTAAAGCTTAGGCACTGGCAGTGGTGGAGGGTCTTCACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001183:ENSGALT00000023397:19
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:
PF0006316=Myosin_head=PD(3.0=37.0),PF0061222=IQ=PU(81.0=31.5)
A:
NA
C2:
PF0061222=IQ=PD(14.3=8.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAGAGCCTTGGAGCTGGAC
R:
CTTTGTGAAGACCCTCCACCAC
Band lengths:
270-876
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]