GgaINT0124990 @ galGal3
Intron Retention
Gene
ENSGALG00000004052 | GPR107
Description
NA
Coordinates
chr17:6419154-6420224:+
Coord C1 exon
chr17:6419154-6419287
Coord A exon
chr17:6419288-6420148
Coord C2 exon
chr17:6420149-6420224
Length
861 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
TGATACATTTTTCTTCTCAGAAA
3' ss Score
8.5
Exon sequences
Seq C1 exon
ATAGAAATTACGGAGAAGAACCCTGAAAGCTACCTCTCAGCAGGTGAGATCCCACTGCCAAAACTTTACATTTCCATGGCACTCTTCTTTTTCCTGTCTGGAACTGTGTGGATCCACATACTTCGTAAACGCCG
Seq A exon
GTAAGGAAAAAGGTGTTTCAGTGACAAGTATGGGCTTAGCTTGTTTGATGTGTTTTTTCCACTTATTATGCCCAATTCAGATTTAATCACTTAAAACTTGAACTCTGGCACAATATTATATGCTTAATGAATATCTTCTAGTTCAAAACGAGATACTTTCATCAGTGCCATTGTTGCAGACCGTTGTTGTAAAGTGATTAATTAAGAGATTGTGTGTGGTGTATGTACTATAGATAGGTCGTGGCAGAAATTAAACAGGAAATTCCTGTATTTGAAAAAAGGAGGATGCTGTTTGAAAATAAATAAAAGAAAAAATGGTTCAATTTTAGTCATATGGGGAATGGCAGCCAATAATATTGATTATAGTCAAAAGCAGTAGAAATTACTAATTAGAAGCCATGCTTCTAAGTAGCTAACATGGCATCAGAAGCCAGGAGCAGCTTGAACCCTTGTACTTAGTTTGAAGTTCATGTGGTGATCTGATTGTTTGGTAATTTGAAGTTCTTTTGGTGGTCTCGTTATTTAGTGCAGTTCATCTGGTGGTGGGATATAGTGACTTGGGGTTGGGCTGGGTGATAGCTATTTGAGTAATGGTTAGTGATTTTCTGATCATTATAATCTGTATGTACGAGATGTTCCTGTGAAATGCTATCTTCCAACCCAAGGATAGTAGCAGAATGTAGTTAAAATATTGTTCAGGATGCTGCAAAAGTTTCAACTGCAGCATTGAAGAGAATCGCTTCATGCTAACAGTCAGCTCTATCTGGGAGGTAATGTTTGACATTTATAGCTGATGAAGAAATATCCTTGCAGAAACTAAAATTTACTGCTGGCTTTTAACTGATACATTTTTCTTCTCAG
Seq C2 exon
AAATGACGTCTTTAAGATTCACTGGCTAATGGCAGCCCTCCCTTTCACAAAATCGCTGTCCTTAGTCTTCCATGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004052:ENSGALT00000006449:9
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:
PF068148=Lung_7-TM_R=FE(15.1=100)
A:
NA
C2:
PF068148=Lung_7-TM_R=FE(8.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAATTACGGAGAAGAACCCTGA
R:
GCATGGAAGACTAAGGACAGCG
Band lengths:
207-1068
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]