GgaINT0025831 @ galGal3
Intron Retention
Gene
ENSGALG00000002690 | F1NG59_CHICK
Description
NA
Coordinates
chr11:1759506-1761074:-
Coord C1 exon
chr11:1760926-1761074
Coord A exon
chr11:1759619-1760925
Coord C2 exon
chr11:1759506-1759618
Length
1307 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TTTCACTTTTTCTTTTCCAGCTT
3' ss Score
11.31
Exon sequences
Seq C1 exon
TCCACAGGAGACCAGGCACTGCAGAGCCTGCAGTATCTCTTCTCCAACGACCTGGACGTGCCAGTGGGGCACGTTGTGCATACTGGCATGCTGAACGAGAACGGAGGGTATGAGAACGACTGCAGCATAGCACGCTTGAGCAAACGCAG
Seq A exon
GTAGGTGCACATCTCCACCACCTGCATTTGGTGGGAGCGCCTGCAGGAGCCTCTTAGCAAAGACTGTGAACTCCACTCCCACACCTCATAAAGAAACGTGAAGTCTCTGTGCTGCACTTCTTCCTAATGCTGTACCCCAAATGAAAGCATGGCTTTACTGGGGGAAACAGGCCCTTTTGGTGACTGCAGATAAGAACAGATTTTGACCCAGTGTTAGGCTTCAGGTGTTTGCTTTCTCCATTGAAAGACAGATTTGTTTTCAGCACATCTGTTCCAGTCGTTAGTTTATTGCTTAAGTGTTCAGACTAACAGTGTTTGCTTATTGACTCCTGGGCAATCTTCTCACTGGGATTCCCTGCTGATGGCTCCTTTTTGATTCTTTCTGCTTGCACTGTTGTGTGGTTACTCTCATTCTCGGCACAGTGCACTTCTCATGTGGGTTTTTTTTACTCTCTGATGCAAACTGACACGATCACAGGATCTCATCCTTAGATGCAGCGACTTCAGCTCTCTTTGGCATTTAATTAAAAAAAAAAAAAAACCTTTTGATGGTTAAGAACTTTTTAATGGGTATGTCTCAGCTGAGCACTGGTTTTATTTCCCTGCGCCACTGTCTCTGTATGCTCTCATTGTGTTGGTGTGAAAGCAGTCCTCTCTGCTGCTCTTCTAATTAGAAGCTGCTTTTTTCCATCTTCCTCTATTTGCATTCATGTATTGTTAGAAGCATTGTCTGCCTCTGTGTGAAACTGGTAGCTTTCCTCCTTGTTAACCACATTTGCAGATATTATCTCTGTCAATAATGTACTCCAGCTCACAATCTGTATGAAAGAGACCAGCTTGTTTCCACATATCAAATAGAGTTCTGTGTACAGACACTGTTCATAATAACCACCATTGTGTCAGGAGAGACTTGCTGAAACAAGAAGTTGCTTTGAGAATGGAGCACTCTTCTGCTGTCAGAGTACACGGAATCACTGCTCTTCAAGAGCAGTCTTACTGTCTGCAAAATGATTGTGACTGCGGAGCTGCCGTGCGGGCGTGCTGTAGAGCTGCCTGTATTCCATTTCTAGAGCTTCTGCTGCCTTCTTGTCACCAGAGTGCTGTGGCTGCTTGCAGGCAGCTTTCCTGTCGTAACAGATGTGGTGGCATTGATCCGTTAGTTGTGGTTTTCCTAAACCAGCATACTGGGTCTTGTGTTATCTTGGAAGCTGCTGAGTGTCTCCAGTGGCTGTTGGACACAGAATGTACTGAGTCACCTCGTGGCTGTCACAATTCACTGTTTCTGGGTTTCACTTTTTCTTTTCCAG
Seq C2 exon
CTTCTTTATGATTTCCCCTACTGACCAACAAGTCCATTGCTGGGCCTGGCTGAAGAACCATTTGCCTGAAGATAGCAACTTGACTATAGAAGATGTGACCTGGAAGTACACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002690:ENSGALT00000004241:12
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=0.000
Domain overlap (PFAM):
C1:
PF0157116=GCV_T=FE(22.6=100)
A:
NA
C2:
PF0157116=GCV_T=FE(17.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCACAGGAGACCAGGCAC
R:
CCGTGTACTTCCAGGTCACAT
Band lengths:
262-1569
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]