GgaINT0126656 @ galGal3
Intron Retention
Gene
ENSGALG00000008472 | F1P2X9_CHICK
Description
NA
Coordinates
chr17:2476568-2477460:+
Coord C1 exon
chr17:2476568-2476712
Coord A exon
chr17:2476713-2477382
Coord C2 exon
chr17:2477383-2477460
Length
670 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CCCTTCTGCTTCTCTTTCAGTAT
3' ss Score
11.04
Exon sequences
Seq C1 exon
AGACATTGCCCGGGGCTATGAGAGGATCCCGATTCCCTGCATCAATTCAGTGGACAGTGAGCCTTGTCCTAGCAATTACAAGTATGTCTCGCAGAACTGTGTCACCTCCCCTATGGACATTGATAGAAACATCACCCATTTACAG
Seq A exon
GTGAGGGATTGTGTTTCTTGTTCTGCTGTGTATAGAGATGTTGCAGTGCACTGCACCTCAGACCAAGTTTTGCATTTAGAATGGGAATGTCTCGTCCTAATATCGAATTCAAGCCAAGGTTGTAGTCTGAAATTCCAGGAGGAGGGATTCTGCTGTTCTTCCTTTCCCAGGCTTCACCTCACCTCTGCATTCAGCTGTTAATGCAGCATCAGCCTGGTGTGGCTCCCATTTGTTTATCCATTTCCTCTGTTCTGGCTGTGAGAGTTAGCCAGTTATTTGGAGACCTTCCTCATGCTGTCTTCCTAGTGAATTCAGAGCTTTCCTTGTCCTCAAGCGTGGAGCTCACAGGGCACTGAGGAGGGTTTGTAACATGGGGAGAAGGTGAAGGTGACTCATGTTGGGATCCTCTTCTGCAATCTGGACTCCTTTGACATTCATTATGCATAGAATTGAAGAACTGAGTGAACATTACCCTGAACTGATGAGTCTGGTTATCTTTTTGGCCAATGAGCTGCAGCAGTGGCCTCTTTTGGGAAAGTTTGGAAGGCACTCCAGCAGCAGGCAGGAGAAGGCGAAGACTTGTGGTTTTGCTCGCTGGCCCACTTAGAGAAGTTGCTCTTTCACTTGTGCTGGAGTGGCTTGGAGCTGATCCCTTCTGCTTCTCTTTCAG
Seq C2 exon
TATTGCGTATGTATAGACGACTGCTCCTCCAGTAACTGCATGTGTGGCCAACTCAGTATGCGCTGCTGGTATGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008472:ENSGALT00000013807:21
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:
PF0503311=Pre-SET=PU(44.3=95.9)
A:
NA
C2:
PF0503311=Pre-SET=FE(23.6=100)
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:
CCGGGGCTATGAGAGGATCC
R:
CTTATCATACCAGCAGCGCAT
Band lengths:
214-884
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]