GgaINT0049049 @ galGal3
Intron Retention
Gene
ENSGALG00000020715 | O42419_CHICK
Description
NA
Coordinates
chr7:20980645-20981880:+
Coord C1 exon
chr7:20980645-20980917
Coord A exon
chr7:20980918-20981760
Coord C2 exon
chr7:20981761-20981880
Length
843 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
TCCCCTCTTTCTTTTTAAAGACG
3' ss Score
8.24
Exon sequences
Seq C1 exon
ATGGCACAGGCAATGCTGGTACCACCAGGATCTGACTGCTTCTTCTATTTCACCAGAGAGTCTCTTGCAGCTATTGAAAAACGTATTGCTGATGAAAAGTCTAACCGTGATAAAGATGAGCATAAAGATGATGGTGGTCATGAAGAAGTTCAGCCAACGCCAAATAATGACTTGGAGGCAGGAAAGACACTGCCATTTATTTATGGTGATATTCCTCCAGAAATGGTATCTGAGCCCCTGGAGGATTTGGATCCATATTATATCAATAAAAAA
Seq A exon
GTAAGCGTTTATTGATATTCTAGTTAGAATACTGAACTATTGAACTATAAAATGCTAAATGCTGTTGTTTGGAGGTAAGTTGGGAGTCCTAGTGAAAGCGCTGTTTGTAGTTTGGTTGGTTATTTTTTGGAAAGAACTTCCTTTTATTGTCTGATGTTTCCTTATGATGATGTTTTGGGCTAGTGGATTATAAATACAATTAGATGTATTTTAATCTCTTGAAATCTGATGCAGTACTGAAGCATTTGAAAACTACTTCTCTGTCTGGCTATTCTGTTCCTGGTGGTTCAAAGAAGTATATTTAGTACTGAGATATAGCCGAGGAGACTAACTTAAATTTTTGTAAAAAGCATTTCAGTTAAAGCAATATTTTTCTAGTACAGAAAGCAGGAAGTTTCAGAGTTAAACCTACTTATTAGCAGATATTTGCCTTTTCAGAGAATAATAATAAAATATAGGTTGACTTAAGTTTCCATTAGAGAGCAGTTTGATTGTTTTCTAGCCCAAATAAAAAATGGTTGAGTTAATGGTACTAGGAATAACTGTGCAGACAGTAAAGCCTTTGAAAGCTCAGGATATATAATCTCAGAAGTAGTTTTAAAGGTGCTGGAGTGATTAAACAGTTGCTGGTAAGTGTCCAAAAACGATTAACTAGGTGCTGTGTTTTGCACTGCCAGGTTGATCTGAAGTGCAAGTAATACAGTTGGATGCATTTTTAATGTTTTAAAATGATGATTTTGTTGTATTTTTAACTTATTTACATTTACTGAAAAATGTTGAAATGCAGAATTTTGTGTCCTTAATTTCCTATTTTTCTCTCCCCTCCCCTCTTTCTTTTTAAAG
Seq C2 exon
ACGTTTATAGTATTGAATAAAGGGAAGACAATCTTCAGGTTCAGTGCGACATCTGCCTTGTACCTTTTATCTCCTTTCAATGTTATTAGAAGAGTAGCTATTAAGATTTTAGTTCATTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020715:ENSGALT00000017930:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.330 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACAGGCAATGCTGGTACCAC
R:
AGGAGATAAAAGGTACAAGGCAGA
Band lengths:
344-1187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]