GgaINT0126643 @ galGal3
Intron Retention
Gene
ENSGALG00000008472 | F1P2X9_CHICK
Description
NA
Coordinates
chr17:2455063-2456929:+
Coord C1 exon
chr17:2455063-2455183
Coord A exon
chr17:2455184-2456797
Coord C2 exon
chr17:2456798-2456929
Length
1614 bp
Sequences
Splice sites
5' ss Seq
TAGGTAACT
5' ss Score
6.43
3' ss Seq
ATACGTGTGTTTCAATCTAGGTG
3' ss Score
9.95
Exon sequences
Seq C1 exon
AGCTCGGAGTCCAGCATCAAGAAGAAGCTGTTGAAGAGGAAAGGAAAGACGGACAGCCCATGGCTGAAACCCACCCGCAAGAGGAGACGGAGGAATAAAAAGAAACAAGCCAATGTGCTAG
Seq A exon
GTAACTAATTGAGTTTTGTTCTTTAACTGCACAGAAAGTGGTCTGCTAGGTAGGGGTAAGGACCTCCGGCCCATAAGGCAGCGGTTGTCTGCAGAGCTCTTTCTTCCTTTTCAAGAGAAGGCTTACCTTTATGGTTAACCAGGGCCTGAACTTGCATCTCACTTACAGGTTCATGTCTGCACTTTAACAGCAGAGTAAACATGACGCAACTTTATCCTGGGCATGCTGAAGTAATGATTTTTGTTCATGAGCTCTCTTTGTTTTAGAACGTCCAAAGAAGACTTCATGGGCTGATGATGTAAACTATGAACTTAAGGAGATTGGGTAGATGGAGAAGAGAAAGGAATAACCATCCCAGAGTGATGCTTGATTGCTTCTGTGTGGGTGTTAGTCCTGCTGAATGCTATGTGCTGGCTGTCCTTGTTACTCCAAAGCACTGCAGCCCATCTCCAGGCCTGAGTTCAGGTGGCTGTTCTAGTCTGAGTGAAGTTACACAGCACTCAGAGGTTGCAGTTCACTGTGTCCTCAGAAAGCTGTGGGATGAGGATGGAGGAGGTGCAGGCTGGATCTGATTCCTCATCTTCAGGAAAAGCAACAGGATGGGTTTAAAATAAAAGAGTTGGTAGTCTCTGAAGCCTTCTCTTTATTAAGGCTTCACACATCCATTGCCATCAAAGAGTTTATTCTGTTTGCTAATGCTTTACGAACAGGCCGTTTTTTATCAGCAGTTGTTGCTGCCTCTTTTCTCAATGGCCACGTTGCAGCCCCTGAGCTGCTCTCAGCGTCTGTCACTCATCTCATTTGCTCCTGTTCCTCCCAGGGCAAACCCTTCCTAAAAGGAAACGGGGGCCATTGATCCCTTTCAGAGCAAACAACTAATTCTTCATTTGAGATGCAGGCTGTTTTTCTGCCCCTTAAATAAAGGTGGCAGCCAGTCTTTCAGGCTAACACAAGTCTCTTGGCCAAGCCTGAGTGGGAGAAGCAAACCAGGATTGAGAGTCGAAGCCAAGGGAATGTGAAGAGATGACAATTCCCACGAAGGCTCCGAGGGATCCCCCATGCAATCCCTTCTTAGCAGCAGCTTTGTTCACTCAGAGCCAGAACTTGGCTTTTATGTTTTCCCCTCCCATTCAGCTGAATGTCACCTGTCTCGTCCTCTCCAGGACGTGCGTTAGCAGCCGGTTTGCTCTGCCTGGCCGGAGTGTACCTGGAGCCCTTTGCAGCAGGTTGGAGACGGGGGAATGCGCCAAGCCCTGGTTTCAGCCCTTCCTTATGCCATTTGAGCTTCTGCTGCTAATGCAGTGCAGCAGCAGGCAGATGTGCCTTTCAGATGCAGAACTTATTTGTCTCATTTATCCCCCCCCCCTTTTTTTTTTGTTTCCTACCTATGTGGAAGTGAAAAATCTGTTGGATCAGACAGGGGTGGAAATAAGAGATGGGAGATCAATTGTGCCACATCTGCCCAGATGCTACATTTCCATCATTCTGTGTGCATCTGTACTTACAGGCTCTCTGAGGAGCCTGCATGCAGCCATCTTGGTTAAATATGGCCTTTACACATGCACGCACTTTTATTTTTTTCAGCTATGTAAATATACGTGTGTTTCAATCTAG
Seq C2 exon
GTGCTGAAGCCTATAAATCATCGTTGGGAGGCAGAGAGGGCTCTGCCCAGGATAACAGCATGGAGTACATGGAGGTGTCTCTGGATTCCTTGGATCTGCGGGTGAAGGGAATCCTCTCCTCGCAGGCGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008472:ENSGALT00000013807:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.910 A=NA C2=0.622
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTCGGAGTCCAGCATCAAG
R:
CTGCGAGGAGAGGATTCCCTT
Band lengths:
246-1860
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]