GgaINT0015366 @ galGal3
Intron Retention
Description
NA
Coordinates
chr14:15228169-15228994:-
Coord C1 exon
chr14:15228784-15228994
Coord A exon
chr14:15228377-15228783
Coord C2 exon
chr14:15228169-15228376
Length
407 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TAACCATATTGCTCTTCCAGGAA
3' ss Score
9.56
Exon sequences
Seq C1 exon
GCTGGAAAAAGACCAACAAACTCTGCTTTTTGGTGGATAAGTGGAAATGGAGAAGAAGTAAAGTGGAGCTTTGAGGAGCTGGGATTCCTTTCTCGGAAAGTAGCCAACGTGTTGACCAAAGTGTGTGGACTGCAAAAAGGGGACAGAGTCATTCTGGTCCTGCCGCGAATCCCGGAATGGTGGCTGGTGAACGTGGCTTGCATTCGAGCAG
Seq A exon
GTCAGTGAGCATTTCTGAGGTCAGTGAAACTGGTTAATAATGCAAATCATTTGAGAGGATACAGAATCGTTTACAAAGGAGAAGTAATGTAAATTAATAATTGAGTGAGTTGCCTAGCTACCAATTACGCAGGCAGCCCTGAAGGATTTGCAGTAGGTGTCATAGAGCAGGTGGCCAGGGGGCATGGAGGTGGCAGAAGGCAAAGAGCTGAGGAGTCACCAGAGAGGTCCGCCTTTGATTCCTTACAGGAGGGCACAGCAGCTGCATTACTCCAACATTAACTGACTTGGGAATGTCAGGGCAAATTCACCCCAGAGGTCAGTTTGGGAACAGTCACTAGTTTAGACTCTTAGAAAAGGATCAGATGTTAAAAATGTTATCCTAAACTAACCATATTGCTCTTCCAG
Seq C2 exon
GAATTGTCTTAATTCCAGGAACATCCCAATTATCAGCCAAAGACATATTATATCGACTCCAGGCTTCGAAGGCCAAGTGCATCATTACCAACGACACTCTGGCTCCTGCAGTAGACTCAGTGGCATCTGAGTGCCAGTTTCTTAAAAACAAGCTGATGGTGTCCAAAGGCAGTAGGGAGGGATGGCTGAACTTCAATGAACTGTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000018875:ENSGALT00000003038:2
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:
PF0050123=AMP-binding=FE(16.7=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(16.5=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:
GCTTTGAGGAGCTGGGATTCC
R:
TCATTGAAGTTCAGCCATCCCT
Band lengths:
343-750
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]