GgaINT0127238 @ galGal3
Intron Retention
Gene
ENSGALG00000001183 | Q789A6_CHICK
Description
NA
Coordinates
chr18:1722599-1723769:-
Coord C1 exon
chr18:1723671-1723769
Coord A exon
chr18:1722743-1723670
Coord C2 exon
chr18:1722599-1722742
Length
928 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
CTCCTTCCCCCCCACTACAGCTG
3' ss Score
9.21
Exon sequences
Seq C1 exon
ACTTGTTGGAGAAGTCTCGTGCTGTTCGCCAAGCTAAAGATGAGAGGACATTTCATATCTTCTACCAGCTGCTGGCTGGAGCAGGAGAGCACCTCAAGT
Seq A exon
GTAAGTGAAGATTCCCATTGTTTGATCCTGTTTCTTCTGCATCCTGAGTTTGTTTTTGCAGTGTTAACACAACAGTGTTTGAGCTATTGTTTGGTGTTGAAACTGAGCTTTGAAAGAAGAGCGAAGGAGAAGGCCAGGTGGCTTTATTTTGAAATAACTTCTGTGTTTTGTCAAGTATGCTGTCAAGCAACAAGCAGATGACTGCTCCATGGCAAAGTCCACTTTGGGCAGGGTAATGGCCAGGAATCACTGGAGTGAAACTGCAGCACTCCTCACTGATGAATAACGAATCCTACTGGCAGTGACAGCCAGAACCATTCCAGGCAGCTCCTTCTAGCTGGGGAGAACAGCAGCTGTTTTGCCAAAATATAATGAAACCCCAAGGCTTTCTTCACCCTTTGCAGTACTGTGTTGGTCATCTTTTTCTCTGGTACCTGGGAATTCCTGCTGGGTTGTGAGAAGTGAAGCTGTATGAAAGTACAGACTTCTGAGAATTGATCCACTCTTTCTCCTTCCATATGGGAAAAATGTGTGTTTCACATTTTTGATGTACTTATCATCAATACTGAGCTCCACTTCTGCCAATATCTGTTACTTTTCAATAGAGATACTTTAAATAGGGATTTGTGATTATGGTAGACCTGAGCAAGGTAACGTTCTTTTTACAGGCATAATGCATTAAAGAGCTAGTGTAGGTTGCCACAGATAGAAACGAGGATCCCAGAATTTCTGCTTTTAGAGTACACTCTTATGTTTGGAATTATTAGAATAATGAATTACTAAGTTAGCATAATGACTTGCAGTCATATCTGAGGAGTTTTATTTTTTTGTAAAGTATGGGTTGTACATCTAGTGAAAGCAGAGTACAGGTGGGTGTGAATAGCAGTTACTTAGCTTGTTTTTCTCTTCTCCTTCCCCCCCACTACAG
Seq C2 exon
CTGACTTGCTGCTTGAAGGATTTAACAATTACAGATTTTTATCCAATGGCTACATCCCCATTCCTGGGCAGCAAGACAAGGATAACTTTCAGGAGACGATGGAAGCAATGCATATCATGGGCTTTTCGCACGATGAGATCTTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001183:ENSGALT00000023397:7
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=0.020
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(5.0=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(7.3=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:
GTTGGAGAAGTCTCGTGCTGT
R:
ACAAGATCTCATCGTGCGAAA
Band lengths:
239-1167
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]