GgaINT0127243 @ galGal3
Intron Retention
Gene
ENSGALG00000001183 | Q789A6_CHICK
Description
NA
Coordinates
chr18:1716455-1718449:-
Coord C1 exon
chr18:1718276-1718449
Coord A exon
chr18:1716629-1718275
Coord C2 exon
chr18:1716455-1716628
Length
1647 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TGAATTCATCTGAATTTCAGGCA
3' ss Score
5.58
Exon sequences
Seq C1 exon
TTGAATTCCTTTGAGCAACTCTGCATTAACTACACCAATGAGAAGCTTCAGCAATTATTCAATCACACGATGTTTATCCTGGAGCAAGAGGAGTACCAGCGAGAGGGCATAGAGTGGAATTTCATTGACTTTGGATTGGATCTGCAGCCTTGCATTGACTTAATCGAAAGACCT
Seq A exon
GTGAGTTTGTGCAGTAAAAATACTCAAAAACAAAAAGGTTCAACCTGAGGGTTTGTTGTTTAATGCCTGCAAATTTATGCAGAGATCTTTTAAATAGCAGTCACAGGAAACGAGTTAATTTGAATAATGTGGTCCAAAGACTAAAATAAAATACCATGTATTAGTAGAAGGATTTGTCCTGAAAGGATTTTGCCCTGATGTCAGCATAGAGCACTGTGATACTAAGCTACTATTTTTATATGTTTTCCCTTGTACTAATAAAGACTTTAGTCCTGTCACTTTCATGCTAAACCATGGCAGTGCATTATAGCAGCTTTACTGTGGTGAATTGGTTAGAAGGCTTTTCAGGACTTAAGGCCCTGCAAATAGGATAGCAGTATTTTCAAGGTGGTGTTACCACAGTATTTTTGTATTCTGGTTGCAAAATATATGGAAGCTGAAGACCTTAAAGCACGAGGAACAGCTGGTTTCAGGAGCAGGCAGAAGGAACAAAGATCAGCCTTCCTAGAAGGTTTTCACTCTTTACACTTCAGAAGTCAGAATTATTTTGAATTTTAATTAACACTGAGGCATTGTGGTTACTGTTCTGTACATTCAGTTGTGTGTCTAGGATACACAGCATGGTTACTGCTAACAATTCTTTGCATCCTGAAGAGGAGAGCTGTGCTCTTGTTTGGTGCTGCTTCGTTTTGTTCTTCTTGTGTTGGAGTAGGAGAAGGGAGGTCTTGTTTCAGTTACAAAAATTCTGCTCTTGAAATGCAAAACTTTGGAAAGCTTTGCTTCCTTGGAAGGTAACATATCTTCCAGAAGGACTGGAGAGTGTTCTCAGTATTGCAGATGTTTAAGTGAATATCCTAAAGTGCACTGAGTTACAAAAAGTAACTCTTAAAGCAAATGTTGGTGCAGTCCTAATTTTTTGACACCTGAAATATTTTATGTCATGTTGTAGGTAAATATAAACACCTCTTCAAATGTGTAAGCTTTCTGTTCATTAGATGCTTTAGAAATACAAATACTTATGACCAGTTTTCCCATTGCATCCCTGTGTACATCAGTCTGTCTTCCCTGATTCTGTCAAACGTTTCTGCAGCTGTGCAGTGCAGGTGTTGGTTATTCCCTTATTCATTTTTAAGAAGAAGCAAACCCTCAAGCAGTGTACAAAGCTGCTGGCTGTGAAAGCTAAGCCTGCTGGATCATTCTGGGTGCTGCTTCTGCATATCAGCACAGGGGTTGGTGTGGTAACTGCCCCAGGAGTATCGAGTGCCTGGGAGGGATAATGATCTGCAGTTTTGCCCACATTAAAGCATGACAGTAAGTACTGTAGAAATAACGAGTGTGCTGCTGTGTGCATACATGTTGCAGAAATGTTTGGTGTGGAGCTCTGGAGGTCATCTATTCCAGGCTCTGCTGAAAGCAAGGCTTCGGTCATCACTAGATCATGTCGGCTGTATCTGAGCCCATCTTCATTGGAATGAATTGATGGGACCAGTCACAGTGTCTTCATGGAATTAGATTCTCTCACAGTTTGCTTTAATTAAGCAGGAATCAGCTAGACAGCTTTTTATTGTGGCGTTCAGTGGGGTGTTTTATAGACAAAATATTAAGAAAAACATATTAAACATTGATGTGAATTCATCTGAATTTCAG
Seq C2 exon
GCAAATCCTCCTGGTGTGTTGGCACTACTGGATGAAGAATGCTGGTTTCCTAAAGCTACTGACAAAACATTTGTGGAAAAATTGGTCCAGGAGCAAGGAACCCACTCCAAGTTCCAAAAGCCAAGACAGCTGAAGGACAAAGCGGATTTCTGCATTATTCACTATGCAGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001183:ENSGALT00000023397:12
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=0.017
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(8.7=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(8.7=100)
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:
TTGAATTCCTTTGAGCAACTCTG
R:
TCCCTGCATAGTGAATAATGCAGA
Band lengths:
346-1993
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]