GgaINT0127252 @ galGal3
Intron Retention
Gene
ENSGALG00000001183 | Q789A6_CHICK
Description
NA
Coordinates
chr18:1707929-1709176:-
Coord C1 exon
chr18:1709045-1709176
Coord A exon
chr18:1708136-1709044
Coord C2 exon
chr18:1707929-1708135
Length
909 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
TTTTTTCTTAATATTTGCAGCTC
3' ss Score
7.78
Exon sequences
Seq C1 exon
GTGAAGCCTCTTCTTCAGGTGACTCGCCAGGAAGAGGAACTTCAAGCCAAGGATGAAGAACTAATGAAGGTTAAAGAAAAACAGACAAAAGTGGAAGCAGAACTTGAGGAAATGGAAAGGAAACATCAACAG
Seq A exon
GTTTGTGCCCCAATCAGCTTTTAGGGTATAGAATTTGTGTTGCATGACCTTCTGGGTGAGGGAGGCATCGGTGATCAAAGCACTGTTCTTATCAGGCAAGTTAACTGTTTTCTTAACACTTGACTAAAACTTGGAAGTGGAAGATAAAAGGAGAGCTTTCCTTCAGGAATAGAGACAGCATATTTAGAAAAAAAAAAAAAAAAGGTAGTTCTGTTGTCATATCCTGGTTTTTGGAAAACCTCAGTAGCATCAACAGCTTTTTCATCTTCAGGTATGTTTTTGGGGTGAGATACTTCCATTGTGTGCCAGTGCTGCTTAAGACATGGGAAAACAATTATGGCAGTTGCTGGGCAAAACTGAAAATGAATTTATGATAAGACTGATACTAAATTGAAGAACAGCTGAAGGAGTATGTCAGTGAAGGAGTATGTCACTGAAGACAGACCTGTATTTATTGCTGTCATTTGAGACATGATATTGCTGTGGTATGGATATCTTGAATGGGGGAACATTAATTTATGTTCTTGAGCCTACACAGTGACTGCAAATACCAGTTCAAACTGCCCTGCTACTGTGCAAGGGCAGTCCCAGGAAGCAGGCATTTCCATCCTCTTTGTGCTGCTAGTAGAACAGGGCAAGTGGTGCAGGTGCTCTGCTGGGGTCTGTGGGGGGTGGGGACACAAATGAGTGAATATTGCTATAGTGCTGCTTCTAGAGTTGGTGCCTTCTGGACTGTGCTAAACCCTGTGCTAAAGATCTTCATTTTTGCATGTGGACCAGGGAGTCTTGAGCTGGAGCAGAACTTGACATTTAGGTAACTTTGTAGTTGCCATATGTGTGTAGTCTCTCATGAAATACTTCAAAATGTTAAGTTGCCACTACTCTACTATTTTTTCTTAATATTTGCAG
Seq C2 exon
CTCCTAGAAGAGAAGAACATTCTTGCAGAGCAGCTACAGGCTGAGACAGAGCTCTTTGCAGAAGCTGAGGAGATGAGGGCTCGCTTGGCTGCCAAAAAACAAGAGTTGGAAGAAATTCTCCATGACTTGGAATCCAGGGTTGAGGAGGAGGAGGAAAGAAATCAAATATTGCAGAATGAGAAAAAGAAAATGCAGGGCCACATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001183:ENSGALT00000023397:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.159 A=NA C2=0.362
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0157614=Myosin_tail_1=PU(15.5=34.8)
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:
GCCTCTTCTTCAGGTGACTCG
R:
CTGAATGTGGCCCTGCATTTT
Band lengths:
334-1243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]