GgaINT0126370 @ galGal3
Intron Retention
Gene
ENSGALG00000001565 | C5
Description
NA
Coordinates
chr17:9035109-9036051:-
Coord C1 exon
chr17:9035842-9036051
Coord A exon
chr17:9035200-9035841
Coord C2 exon
chr17:9035109-9035199
Length
642 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGT
5' ss Score
10.74
3' ss Seq
GATTTACTCATCTTCCACAGAAT
3' ss Score
7.98
Exon sequences
Seq C1 exon
CTATTTCAGCATCCAAATATAAACATCTAGAAATTCGAAAATGCTGTATGCATGGAGTAAAAGCATATCCAGTAAGCGAGACTTGCAGTGATAGAGCTCGGCGAATTCAGAGTCATGCAAAGTGCGTTTCAGCATTCAGACATTGCTGTGAATTTGCAAACAGACTGCGGGAAGAAGAGCCTAGTAAGCTTCTAATATTGGCAAGAAAAC
Seq A exon
GTAAGTAGAAGAGCTTTGACTCTTGTGTGGGCATGTAGAGAAATACTTCTTGTAGAGTGTGAATGAACGTAGAGGTGACAACATAGATAATCTGTTAACCCTCTCTGATTACCTCTCAGGATTTTTTCAGAAGGAATTGTGCCAGTCTCCATAGACTTTGATTGTGTACCCCTACAGAGGGGAGAGAACAGTTCTTTGTTCTGATAGAAGTGCTAGAGAGCTGTATTCTTTTCATCCATGTTTAGAACAAGCAGAAATGTGTTGTTCATCTGAAGAGAATGTTAATTTGAATGCTTAACTTGGAATCCTTTGCCTAGGCCTAAAACAGCCAGTGGGTAACATCTCAGAAAAGATCAGTGGGACTGTGAAATTTCTTGTCTCCCATTCTCTCCCTCTAATTGCTTGTTAACAAGTTAATCTGTCCAGATATTGAATGGTTGTCCACATGTATAAGTAGATGAAGTGGAATAAACAGGCTCTTGATTTGGGTATTTGGGTACTTTTTTTGTATCAGGACTAACCTGAGGCAAATAGGCTTATAGACAAAAGGAAGATATAATGATTTTCATGCCTTTAGTGGAAGGCTTTTGGCAAGAGTTTTTTGCTTGTTTATTTTTTACTTGATTTACTCATCTTCCACAG
Seq C2 exon
AATTTGAGGCTTTTTTGGAACTAGACGAGGCAGAAGTTCGGAGCTATTTTCCTGAAAGCTGGTTATGGGAAGTTCATCAAGTTTCTCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001565:ENSGALT00000002379:18
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:
PF0182113=ANATO=WD(100=50.7)
A:
NA
C2:
PF0020717=A2M=PU(12.4=35.5)
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:
ACATCTAGAAATTCGAAAATGCTGT
R:
CGTGGAGAAACTTGATGAACTTCC
Band lengths:
279-921
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]