GgaINT1001140 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NB86]
Coordinates
chr9:12680625-12681745:-
Coord C1 exon
chr9:12681468-12681745
Coord A exon
chr9:12681221-12681467
Coord C2 exon
chr9:12680625-12681220
Length
247 bp
Sequences
Splice sites
5' ss Seq
GCCGTAAGT
5' ss Score
10.11
3' ss Seq
TTTTCCTTTTGTCTTGGCAGCCA
3' ss Score
9.46
Exon sequences
Seq C1 exon
CTGCTCAGCTGGGACGCAGTCCCCGCCAGCCTGCACTGAAACGGACAAGCAAGTCATTGCCAGCAGCAACTTCTGTGGGCTCCTCACGGACACCAGCGGCCCGTTTGAGGTGTGCCATGCCGTGCTGAGTGCCAGCGGTTACTTCGACACGTGCCTGTATGACCTGTGTGAGCTGGGGCTTGATCGCGAGGCGCTGTGCAACAGCTTGCAGTCCTATGCAGATGCCTGCCAGGCGCTTGGTGTCCAGATCCCTGTGTGGAGGAACGCAACATTCTGCC
Seq A exon
GTAAGTCAGAAACAGAAAAGCACCCCATTTTCTGAGCTGGTTAGCTGCTGTGAGTGTGGGAGCACCCTTTGTTGGTCACATTGCCGGTGTGGTTCTTTCTATGTAGAAGGCATCCCACTGGGGCAGCTGGGAGGAGCTGTGGGGCGATTGCATCCTTCCAAAGCCCCCAGTGAATCTGGCCTACCTTGGGAGCACTGCGGGTGTAGGATGACTGATGATTTCACTGCTTTTCCTTTTGTCTTGGCAG
Seq C2 exon
CCATCACGTGCCCAGCCAACAGCCACTACGAGCCCTGTGCTGCAGCTTGCCCTGCTACGTGTGTTAGCCCAACGGCACCATATAACTGCAGCTTGCCGTGCGTGGAGGGATGTGTATGCGACAGCGGGTACCTGCTCTACAACAGTCAGTGTGTGCCCATCCAGCAGTGTGGGTGCTGGCACAACGGGCAGCACTACCCGGTGGGCTCAGAGTTCTGGACGGACAACACCTGCTCGTCCAAGTGCACATGTCCCACGCGAGGAGGCAAAGTCCAGTGCTCCAGTGCATCGTGCCCTGCTGGCCAGTTCTGTGGTGTGCAGAATGGGAAACCCGAGTGCCTGGAACACTCCTACGGCATCTGTCACGTCCACGGGGACCCTCACTACAACACCTTTGACAAGGTGACGCACAACTTCATGGGGAACTGCACGTACACCCTGGCCAAAGTGTGCTCCAACACCTCTGTGCCGTACTTCAACGTTGAGGCAAAGAACGAGCATCGTGGCAACCCCCGAGTGTCCTACGTGCGTGAAGTCGTGGTCGATGTGTATGGAGAGCGCATTACCATACTCAAGCAGGAGAGGAGCCGAGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007208:ENSGALT00000011664:16
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=0.005
Domain overlap (PFAM):
C1:
PF087426=C8=WD(100=79.8)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=27.1),PF127142=TILa=WD(100=28.6),PF0009420=VWD=PU(50.0=39.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACACGTGCCTGTATGACCTG
R:
ATGGGCACACACTGACTGTTG
Band lengths:
293-540
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]