GgaINT0127269 @ galGal3
Intron Retention
Gene
ENSGALG00000001183 | Q789A6_CHICK
Description
NA
Coordinates
chr18:1691140-1692615:-
Coord C1 exon
chr18:1692407-1692615
Coord A exon
chr18:1691249-1692406
Coord C2 exon
chr18:1691140-1691248
Length
1158 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGG
5' ss Score
6.6
3' ss Seq
TGGCTTCTGATTGTTTCCAGGGA
3' ss Score
8.37
Exon sequences
Seq C1 exon
GTTGACACGCTGAATTCTGAGCTGGCCGGGGAGCGGAGCGCTGCACAGAAGAGTGAAAATGCACGGCAGCAGCTGGAGAGGCAGAACAAAGAGCTGAAAGCCAAGCTGCAGGAGCTGGAGGGATCTGTGAAGTCAAAGTTCAAGGCAACAATTTCTACTCTAGAAGCCAAGATTGCTCAGCTAGAAGAACAGCTTGAGCAGGAAGCAAA
Seq A exon
GTAAGGAAAACTCTGTGTGCTCTGTCAGTAGAGTGTGTGAGACATCCATGCCTTAAGTTACTGTGGGGTTGAGGTGTGAGGTCACAGCTACAGCACAGCTGTTAGGTTTTATTATTTAGAAACCTGTTTGAGGGACTGACTTGAATCAGATGCACTGAGGTTGAAAGTTTCAGAGTGTGTTCCTTAACTGAAACTGCTGATTTACTTCTTGAAGTTTACAAGTGTTTGTGTTAACTGATAGTCCCAGAAACCACAGCTGCTTTAGCAGAAGTTTCTTAAGACAAAACATCTTGAGACACTGGTCTCTTTGGGTTAGGCTTTAAAGAGAAGGAGGGCCACAGGGATGCTGAAGGGCCTGGAGCTTCTCCCCTGTGAAGACGGGCTGAAAGCTGTGACTGCGGAGCCTGGAGGATACCATCTGTATATGCATATCCATCAGAGAGGTGCAGAGGATGGAGCCTGGTGCTTGTCAGTGCTGCTCAGGGACAGGACAGGAGGCAGTGGGCAGGAATTGGAATACAGGAGGCTCCACCTGAACATCAGGAAGCACTTTTTGACTGGGGGTTGACTGGCACAGGTTGTTGAGAGATTGTGGGGTCTCTTCCTCGGAGGCACTCAAAAGCTGTTGGGTGTGGAAAAGCAGCTCTGCATGGCCCTGTTGGAACAGATGGCCTCCAGGGGTCCCTCCTCACCACTTTGAAGTAAATCTTGTGCTCTGTAGAAGTCATCTTTCTCCAGAGAGTGCTTCTTTCCATCTCAGTCCTCCAACTTTTTTTTTCCCCTGCCTTGTCCTTGGAAGACTGAAAGTGGACTGTCTTATCACCACCTCCATTCCTGTTGGGCTTTTCGCTCTGGGGGAGGACCACGGCATTGCTTAGCAATAACCCTAACACTGCTTTCTTGAATCTCACTGTGTAGAAGCACATCCCTACTTTTAGCCTCCAAACAGTACTTGTGCTGCTCCAGTGCTCGTACTTCATGCTTCTAAAGCTGCATCCCAGCTGACCTCCAGCGTACTAAAACTCAAAACTGAAGTCAGTGCTGCTGGTGGTGGCAGGCATGGTAGGCTCAAGCCTCAGCTGCACGATGAGGCAGGAGCCCTTGTGAGAGAACACATGTGGTGCTCACAGCCTCTGTGTGGCTTCTGATTGTTTCCAG
Seq C2 exon
GGAAAGAGCAGCTGCAAACAAACTGGTGCGGCGCACAGAGAAGAAATTGAAAGAAGTCTTCATGCAGGTGGAGGACGAGCGCCGACACGCAGACCAATACAAGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001183:ENSGALT00000023397:38
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.600 A=NA C2=0.757
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(8.0=100)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(4.2=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:
GTTGACACGCTGAATTCTGAGC
R:
CTGCTCCTTGTATTGGTCTGCG
Band lengths:
318-1476
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]