GgaINT0127271 @ galGal3
Intron Retention
Gene
ENSGALG00000001183 | Q789A6_CHICK
Description
NA
Coordinates
chr18:1688421-1690792:-
Coord C1 exon
chr18:1690620-1690792
Coord A exon
chr18:1689889-1690619
Coord C2 exon
chr18:1688421-1689888
Length
731 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
TCTCTGCTTGTTGCTTGCAGGAG
3' ss Score
9.6
Exon sequences
Seq C1 exon
ATGGAAAAAGCAAATGCCAGGATGAAGCAGCTGAAGCGCCAGCTGGAGGAGGCTGAGGAGGAAGCCACACGTGCAAATGCTTCCCGACGTAAACTGCAGCGTGAGCTGGATGATGCCACGGAGGCAAATGAGGGCCTGAGCCGGGAGGTCAGCACCCTGAAAAACAGGTTAAG
Seq A exon
GTATGTGGTGCAGGAGTTGGCAGGGCTTTATCTGCGTGCCCTCTGACCGTGTCCGTAATGCTGCATCCTTGGGGACCACTCAGCTGTGGAGCTGTGGAAGCAGAGCTGTTGCTGTTAGGGGATGGGCTGCACTGGAGTCTGCTGGGAGCTGCTGCTGACTGAGCCTGATGTGATGGTGCCGAGACAGCTGCTGGCTGTGAGGATGTTCCTGTTGGCTCTTGAGCCTGAACTCTGCAGAGCATATATCCCAGGTTGGCTGGGGTTGGTGCCTGAGTCCAGCAGGAGGAGGTGACATGGCATAAATGAGGCAGCTCAATTATGCTCTTCTAGTGGCAAGCATTGATTGTGTTGTTCCCAGCCAACCCCATGGGAGCTTTTCACACTTTGATCTCACAGCTCTGCTTTCAGAGTTCATATCCAGTACACAGCAGGGCTGGAGGAGGGGACGCTGCAGGAGGAAAACCGTCCTGGGCGGCTGCAGGGCCAGCAGTGGCAGGAGGGGTGCAGGGCAGTACTTCCTAAGAAAGGACCTGCACTGCTCAGTGCTTGGTCTGAGCTAAGCAGAGCACCAGAACGTGTTGGAGCATCCTGTGGTGACCCCGTGATGGGAGCGGTGCTTCCAATGCCCCTCCTGTGAACTTTGGGCAGTGCTGTTCCCCTGCAGCTCAGCTGGGAGCTGTCGGGGCGGTGTGAGGACGATGCAAAGGCTGTTCTCTGCTTGTTGCTTGCAG
Seq C2 exon
GAGGGGCGGCCCCATCACCTTTTCCTCCAGCCGATCCGGGAGGCGCCAGCTGCACATCGAAGGGGCCTCCCTGGAGCTCTCGGACGACGATGCGGAGAGCAAAGGCAGCGACGTGAACGAAGCGCAGCCGACCCCCGCTGAGTAGAGCCCCGCACACCACTGCATGCAGAGACCTTTACACCACAGTCGGCAGAGCGAGGAGGACTTTCCTGACCACCAGACTGCCTTGTGGCCCTAAATCTGCCTTACAAAATGTCGGCATGCTACAAGGTTACTTACCATAGGTCAACTATGTCTTAAGGCTCTCCAGCCTCACCATACTGTACCCTGCTTCAGATATAGGTACAACTGCTTTTTTTTACATATAGTAACAAAATGGGATCGTCTCTGTTCAGTGCATCTATTTTCCAGACACTCATTGTAAAGCCATTTTATAAAGCATCATGTGAAGGATGAAACTTTCTGTATTGGTTAAAAAAAAAACACAAAACTTCATTCCCGGAGGGTAGGTGGTTGGGACAGCCCCATTGTCATGGCTCCGCATGCTTTGTACAGACAACATCCTTCCATTTCTCCTGTGCTCGGGCAGCCCCCGGCTGCACTGAGCCCGTTGGATCATTGAAGACCAAACTGCACCCGCATCTTTTCTTTTCTCCTAACTGTTGTGATCGGCACACAATCAGTGAGTGAACTGTGAAGAGCCTTGGGAAGCGTTAGAGGGAAGTGTAGGGATGAGTGAGTAGCGTCCATTTTTTAACCCTCAGTACCATTTTGGAGTGTTCTCAGCACCTGCTTCATCCATTAGTGTCATGCAGTACAGGCAAACAGCGTCACCGTTCCTCTCTGTACAGTACTTTGCAGCTGTAGCATCCTGCTCTTCCCACGCCCAACAGGTCTGTATATATATATTAAGGCTAGTACAATGTGAACACCAGTGGAAAACAAGCATACAACACAGGCACAGTAATTTATTAACTTCAGGCTGAGCGCTCTTCGGGACGCTGCCATGGCCGTGCTCACAGGGCTGCGCAGAGGGATGCTGCCTGCCTGCAGTTAACATGCCAGTGGATGTGAATCCTTTTTTCGTTGTTGTTGTTGTTGTTGTTTTTTATTTTGAGCAGTATTACAGCGAGTAGTTAGCGTTCTTTTTGTTTCAATAGCTGAAAAACTGACATTACAGAAAGTGCCTTAGACACTACAGTACTAAGACAATGTTACATATATAATTTGCCTATATAACGATGATTTAATGTATTAATTTTGACTGTGCTTCATATCATGTACCTCTCTAGTCCAAGTGGTATTATGGATATTAGTGACAATGAATCAGTGTTAATAGGAACCTTCCTCTGCCACACGCTCAAACAAAAAGATACGGATTTCCTTTTTTTGGTTAAAAGCTTTAACATCTGTCGCAAAGGTTTTGTTGTGAAAGGTTGGGTATTTTTAATCAAACTGGCTGTTGACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001183:ENSGALT00000023397:40
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(6.6=100)
A:
NA
C2:
PF0157614=Myosin_tail_1=PD(0.1=2.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAAATGCCAGGATGAAGCA
R:
AAAGGTCTCTGCATGCAGTGG
Band lengths:
342-1073
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]