GgaINT0126650 @ galGal3
Intron Retention
Gene
ENSGALG00000008472 | F1P2X9_CHICK
Description
NA
Coordinates
chr17:2468179-2469766:+
Coord C1 exon
chr17:2468179-2468285
Coord A exon
chr17:2468286-2469643
Coord C2 exon
chr17:2469644-2469766
Length
1358 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
TGCCTTGGCCTCCTTAACAGGCT
3' ss Score
7.92
Exon sequences
Seq C1 exon
TGGATGGAATTGACCCTAATTTTAAAATGGAGCATCAGAGTAAGAGAACCCCTCTCCATGCTGCCGCTGAGTCTGGCCATGTGGACATCTGCCATATGCTGATTCAG
Seq A exon
GTCTGTCTCTACTTAAACGTTTTTCTGTATGAGCAATTTTCCGTGTTTTTTGGTCTTGTGCCCCACAGAACTAAAGCACACTTGAAAAACCAGTGTTGAAAAACCTCGTTCACACTGTTAGCTGCAGGAGGGAGTGGTGCAGAATGGTGTGAAAACTTTGGTGATGTGACTAAAGATGTCTTTCTAGGCTGTTTCTCCTAGCTCCTACCAGCTTCACTGTCTGTGCAATGAGCACATGGAGCTTTGATGTAGGGCACTGTAGAGCATGTAGGATGCTCTGTGCCTAAGCACACCCCACAGTGTAGTGCACTGCCAGATGTAGCAGCACAGGCTGACCCGCAGGTAGCTGCAAGCTGCTGCCAACTTGCTCTTTGTAATGCTGGTGGGTAGGCTGTAAAACCTGCAGGCTAGCAGACCCTGCCTTGCCTTCTGTCAAAATCTGAACAACTCCTGCAGGGTTGTCCTTTACACTTGTGAAAAGAAGAAAGATGCAAGTTTCACTTGTTATGTGAGATTTAGAGATTTGGGCTCTGGTAAGTTTAAATGAGGGAAGATGGTGAAAGACGTAGCAGTGCTGCTGTTGAATCTGCTCTAGAACACTGTGAAATAAAAGAAGGCCTTTAAAGGGCTGTAGTTTTCTTCTTGTGGCAGGTGAACCTGAGTCAGCACGTTACTGCTGTAAGCACATCTTTGCTTTGTACATGGGTACATGCATGGTGTGCCAAGAGTTGTTCTATTTCTCAGATTTTCTTTCGGTTTTAAGTAGTGGGTGGATTATTGAGCTACATCAAAGAGCTGAAGGGGGCAAGATGCGTGAGACAACAGAGATTTTGGTCCAGAGCACTCCACATTGAACTCAGTGTGTTCTCAGAGCAATACTGGCATTGACTTCAATAGAATAGTTAGCTAGTCTGTAGTATTTCTGACACCTCCTACCTCTGCTGTGATCAGCAGGTTGTTCCTACTGCCTGTGACATTGGGAAACGCTGCTTGTCTGTTCATTGTATCTGTACAGATGATAGACCAGGGAAGACCAAGCTTCTGAAAAAGATCAGCCTTCATTTCCCAGAATTGTTACTCGGTACCAAAGGCAGCAGTGACAAGAGCTGTTTCACACCTGTTTGCTTCTTTGTGCTGTAGTTGCTGGCTAGGGAAGGCAAGCAGTGTGTACTGCTTTCCAAAGCAGGTGAAGTTTGTCTGCCTTCTGCCTCTGGTGGTCTTGTTTTTTTCTCAACATGGCTGAATGTCAGGAACATCTTGTTGCTAAACTTGCTACTGAATCTCTACTCCCACATCCTTCCTTTGCTAACCAGTGAAGGTTACAATTGTCTTTGTGTCTGCCTTGGCCTCCTTAACAG
Seq C2 exon
GCTGGTGCGAATATAGACAGCTGCTCTGAAGACCAGCGGACCCCACTGATGGAAGCAGCTGAAAACAACCACCTGGAAACTGTGAAATACCTTATCAAGGCTGGAGCACTAGTAGATCCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008472:ENSGALT00000013807:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.343 A=NA C2=0.195
Domain overlap (PFAM):
C1:
PF0002325=Ank=PU(66.7=61.1)
A:
NA
C2:
PF0002325=Ank=PD(27.3=22.0),PF127962=Ank_2=PU(26.6=61.0)
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:
TGGATGGAATTGACCCTAATTTTAAA
R:
CTTAGGATCTACTAGTGCTCCAGC
Band lengths:
230-1588
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]