GgaINT0050562 @ galGal3
Intron Retention
Gene
ENSGALG00000009583 | Q5F353_CHICK
Description
NA
Coordinates
chr7:19634284-19635086:-
Coord C1 exon
chr7:19634956-19635086
Coord A exon
chr7:19634417-19634955
Coord C2 exon
chr7:19634284-19634416
Length
539 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CTGTGTTCATATTTTAAAAGCCT
3' ss Score
4.69
Exon sequences
Seq C1 exon
ACTGAAGATCTCTTTTCCCTTATTGAAACACATGAAGCAAAGCCATTAAAACTTTATGTATATAACACAGACACAGATAACTGCCGGGAAGTGGTGATAACTCCAAATTCTGCCTGGGGTGGAGAAGGCAG
Seq A exon
GTAAGGGAAAAAGTACATTACTGGGGGCGAGGAGGGGTGGGACAGCTTCATTACAGCACTAGTCTAAAAGCTGCTCACTTCATTCTTTGCAATACCCAGAAAAGACTGCCCTTATATCCAAGCAGTTTCTGCTGTAGTCAATTACATATTTACTTGAAATTCAGTTTTAGTTAGTAATGCTTTCTGCATTACTGCACTTCAAATACTAAAGAGGCTGTAGTATACCCTGAACAGGCAGCTGCAAACAGTAGGTATAAGTTGAATTCCATGGCGATACAGCTGATACAGCTGGTTGGTTTAAAGAACAATAAAACTTCTGTGCTAAATGTTCATTGCTGAATGTTAGAGAATTCCTGGTTCTGTTGTCTCATGGTGTTATTTCTCCATAGCAGATACTTGGCCTTTTTTTCTGTAAACACAAATGATTGTACAGAGCTGATCTTGAAACTTGCTGTCACCTTGAGTCATCTGTGCATTGCTTGCTGTGGAGTCTTAATAATAAAGTTATTTTACTGACTTCTGTGTTCATATTTTAAAAG
Seq C2 exon
CCTAGGGTGTGGCATTGGCTATGGGTATTTGCATAGGATACCTACGCGCCCATTTGAAGAGGGAAAGAAGATCTCTCTCCCAGGACAGCTGCCCAGTGCATCTCTCAGTCCTCTCAAAGATGGCTTTACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009583:ENSGALT00000038551:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.244
Domain overlap (PFAM):
C1:
PF044959=GRASP55_65=FE(31.4=100)
A:
NA
C2:
PF044959=GRASP55_65=PD(11.7=35.6)
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:
ACTGAAGATCTCTTTTCCCTTATTGA
R:
CTGTAAAGCCATCTTTGAGAGGACT
Band lengths:
262-801
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]