GgaINT0126657 @ galGal3
Intron Retention
Gene
ENSGALG00000008472 | F1P2X9_CHICK
Description
NA
Coordinates
chr17:2477383-2478690:+
Coord C1 exon
chr17:2477383-2477460
Coord A exon
chr17:2477461-2478574
Coord C2 exon
chr17:2478575-2478690
Length
1114 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TGAATGCATCTCCCCTTCAGGAT
3' ss Score
8.68
Exon sequences
Seq C1 exon
TATTGCGTATGTATAGACGACTGCTCCTCCAGTAACTGCATGTGTGGCCAACTCAGTATGCGCTGCTGGTATGATAAG
Seq A exon
GTGAGGATGCACAGCTTCATGTTTGGTTGGCAAACTGAATGTTGCAAAATTCAGGATTTCTAATAGGACCTAAAACCAATTCCTTGCACAGCTCCTCTGCTTTTTGTTTTAAAATGCCTGGAGTTGCAGTCTCAGCTTTGAGGTGTATGTGATAATAACAAAATGTGTACTCAGGGAAGCTTTTCCAGTGTTATTTGTTTGTGTTGCTGTCATGCCAGCTGAGCCATTAATTATACCCATGTGATAGAGAGCATTTAATAACCCATGCGTGAAATCAGCTTCCATTTCAGAAAGACATAGAAAATGCTGTAATATATAAACAGGGGGAGGGTAGAAGAGAGATTTTTGCCTACCTTAATTTATCGGGACCCTTCTGGATGAATGCAAAGTAAATATGTTTTAACTTCATCACTGCCAGAAGCCTAGTTTGTTTTGGGTAAGTGTGCTTCAATCCTCCTGGGAGGTTTTGAGGTTAATATTTGGACAGGTTCTGCTAAGATCAGAAGTTCTCTTAATCTCTGTAAGTTCTTCCCAGGGGGAGTACTGGCATCTTTCTTTGCTTTGTAGGCATTTTATTTACACATTAATAGGTGATTACATCTTTAAAGCCATAAAAGCCAAATTTGTTTAGTGTGATGAACTGCCTCTATCACTTGCTTAATCCTATATGGTTGGTAGATAATTGAATTGTAGCTTTTTTGGGAGAGTTATTTGGGAAGATAATGTGGTTTACAGAACTTGGGTGTGCTGGCCTTGTAATGTGGAAGTTGAGGCTTTATTCCAGAGACAAAGCATATGCTTCTCCCCTCCAGCACTGTGAAAGGATGATGATGGTGATGCACACCATTTTTTTGCACAGCACTGTGAGATACTTTAATGGTGGTGCGTAGGGTGATGCCAGGCAGCAAAAACCTGAATGGTTTCTTGCTGTTTGTGATAGTGACTTGTGTGCTGCTGTCAGGACAGAGCAAAGCCTGTGCAGAGGTTGAGTTCTGAGATGGTTTTTGGAGAGGTCGGGGCATGCCTCTGCAGTAGGGGTCCTCACCCGTTTTGCGTTTGGGATAGTTCACAAGAAGAGAAAACTAACCTTGTCTTGAATGCATCTCCCCTTCAG
Seq C2 exon
GATGGCCGACTCCTGCCTGAGTTCAACATGGCTGAGCCCCCACTGATCTTTGAGTGCAATCACGCGTGCTCATGCTGGCGGACCTGTAGGAACCGGGTGGTGCAGAATGGGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008472:ENSGALT00000013807:22
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=FE(23.6=100)
A:
NA
C2:
PF0503311=Pre-SET=PD(29.2=79.5)
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:
GCGTATGTATAGACGACTGCTCC
R:
CTGAGCCCATTCTGCACCAC
Band lengths:
190-1304
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]