GgaINT0048549 @ galGal3
Intron Retention
Description
NA
Coordinates
chr7:21395468-21396381:+
Coord C1 exon
chr7:21395468-21395596
Coord A exon
chr7:21395597-21396289
Coord C2 exon
chr7:21396290-21396381
Length
693 bp
Sequences
Splice sites
5' ss Seq
GGCGTAAGT
5' ss Score
9.39
3' ss Seq
TGTGAACTCCCCTATTACAGATA
3' ss Score
7.61
Exon sequences
Seq C1 exon
GTACACTTTCACTGGAATTTATACCTTTGAATCACTGATAAAAATTCTTGCAAGGGGCTTCTGCTTAGAAGGTTTTACTTTTCTGCGAGACCCATGGAACTGGCTTGACTTCAGTGTCATTCTAATGGC
Seq A exon
GTAAGTGGTTCAAGAACTTCTTAAGCTTTTAGGGCATGAAATTAGTGGCAAACACTATTATTATCATGAATATATTCATTTAAAAATATTTAATTTCTGCAACCTGTGAAGTTTAGATGCTGTGTCACACATTGTAGTATGCATAAATCAAAGCTAAATATGGCAGTAACAAGCACAGAGTGTCAGCCACCAGTGTAATTACTGCTGAGGGACACTAATTTCATGTCCTATATTTTTCTGCTCACCAGAATAGAAGCCATCCCTTTGAGTTATGTCACTGTCCTATTATAAGCTAATTAGTTTAATTAGCTGTTCAAATGTAAATCAGTGAGTTACACGTCAATGACGTTTAAACATAACTCATGAAAATATGTATAGCAAGGTGTACTGGAGAGACAGGTAAATTTTCGAGTACGATTGTTAATGTTGACACAGAGGTTTTGAAGACCCTCATAATTAGTGTAAAATCTGCCTCAATTCTGAATAACTGTGATTTAATCCTACAGGTATGTAACAGAATTTGTAAACCTAGGCAATGTTTCAGCTCTTCGAACTTTCAGAGTATTGAGAGCTTTGAAAACTATTTCTGTAATCCCAGGTAAGAAGTAACTGTGTAAGGTGTTAGGCCCCTTGTAACTCCAATTGTTATTTGTGTGCTGTCATTGTGTTTGTGTGTGAACTCCCCTATTACAG
Seq C2 exon
ATATGTGACAGAGTTTGTGGACCTGGGCAATGTCTCAGCGCTGAGAACATTCAGAGTTCTCCGAGCTTTGAAAACAATATCAGTCATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011040:ENSGALT00000017981:4
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:
PF0052026=Ion_trans=FE(16.0=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(11.6=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:
GTACACTTTCACTGGAATTTATACCT
R:
TGACTGATATTGTTTTCAAAGCTCGG
Band lengths:
215-908
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]