GgaINT0008808 @ galGal3
Intron Retention
Gene
ENSGALG00000007354 | CIT
Description
NA
Coordinates
chr15:9854093-9855220:+
Coord C1 exon
chr15:9854093-9854198
Coord A exon
chr15:9854199-9855076
Coord C2 exon
chr15:9855077-9855220
Length
878 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
CCTCTTGATATTTATTGCAGATG
3' ss Score
8.46
Exon sequences
Seq C1 exon
ATCTGTGCTTTCAAGTGTGGATTCTCCAGCAAAGGTCAGCTCCATGGAAAAGAAACTTCTTCTCAAGAGCAAAGAACTCCAAGACGCCCAGGACAAGTGTCACAAG
Seq A exon
GTATTTATTTATCCAGTTGGCCGTCTCCATTGCTCAAGGAATCTGCAACCACTGTGTGTCCAGGGATCTGTCAGATGCTGCTGATCATCCAGATTCGTGGTGGGCAAAGTGCTTTTCCTTCAGTGAGGTGGCTTCCTGTCCAATACAAAGGGAGATGAATTTAGGCCATGCTGTTGCTGTAGATACTTTTATCATAACAAGAAGCGGCTCTGGATTTTAAACAGTCCTTTTCTCAGCGTGACATAGACGACTGCTTCTTCCTGCAGGCCTTGCCTTGTCTTCGTCATATGCGCAATTACAGCAGCACTGTTCTGAGGTTCTCTGTTCCTAGCTCATCAGCTTCTGCTTACATAACTACTGTCGTGTCACTGGTTATGGTGAACATCTTGTAACAGTTGCTGTGCTCCAATAAAGGGAACCTGGTGGAGTCTTTTAAAGCTCACTGCTCGATTGAGACTTTTATGAGAATTCAATTACTTTTCTCCTTGGTCTGTTCTGGATTTGACCATTTGTTCCTGACAAGGAGATGGGGGGAAACCATCTCCTGATCCAGCATGGATTTGGGATAAGGTTAAAGTGAACCATCTCTGCAAGTCAGGTGAAAAATGATTGTGGCTTCTTTGCTAACTGGTGTTCGAAGAATGACTGAATATGAACAATCAGCTTGAATGAATGGGGTGACTTAGACTTACTACTTGTCCTTAAGAAGAACTGTGCATTCCTGGAGCAGAGACAATGGTATCGGAATTTAAACACCTTTTGGAGCAATATAGCATAGAAGTCTCTTGGAGGCAAATTCTTCTCAAACAGAGCTCTGAAAGTAACAGTTAACAAAGCTTTTGAAGCCCCCCTTTATAACCTCTTGATATTTATTGCAG
Seq C2 exon
ATGGAGCAGGAAATGACGCGGTTGCACCGGAGAGTGTCAGAGGTGGAGGCTGTACTTAGCCAAAAGGAGGTGGAACTGAAAGCCTCTGAGACCCAGCGATCCCTCCTGGAGCAGGACCTGGCCACCTATATCACAGAATGCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007354:ENSGALT00000011895:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.146
Domain overlap (PFAM):
C1:
PF0396210=Mnd1=PU(14.3=41.7)
A:
NA
C2:
PF0396210=Mnd1=FE(44.8=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:
TCTGTGCTTTCAAGTGTGGAT
R:
GCATTCTGTGATATAGGTGGCCA
Band lengths:
246-1124
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]