GgaINT0015367 @ galGal3
Intron Retention
Description
NA
Coordinates
chr14:15227642-15228376:-
Coord C1 exon
chr14:15228169-15228376
Coord A exon
chr14:15227779-15228168
Coord C2 exon
chr14:15227642-15227778
Length
390 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TTGCATTCTGTGTTTTACAGAAA
3' ss Score
9.67
Exon sequences
Seq C1 exon
GAATTGTCTTAATTCCAGGAACATCCCAATTATCAGCCAAAGACATATTATATCGACTCCAGGCTTCGAAGGCCAAGTGCATCATTACCAACGACACTCTGGCTCCTGCAGTAGACTCAGTGGCATCTGAGTGCCAGTTTCTTAAAAACAAGCTGATGGTGTCCAAAGGCAGTAGGGAGGGATGGCTGAACTTCAATGAACTGTACAA
Seq A exon
GTGAGTATGCATGAGCGGCATTGCAGTCACGATGCAGAACACAGACCTGTTCTTCACAGATGCTCATTTACAAGTATTCATCAACTGTGAATATTCATCACTCACCAACATTAAGCCTTAGTGGTGTGAATTCATGACTGCCTGATTGCTGTTTCCACATCAGAGTTGTTTGCTGATAACAGTTGTTTACCAACAGTCTTCAGACTTATTCCAGGAAGTTTCTACACTGTCCTTCCTAAGTGGAATCACGTCATGTCATCAGTCACATGGAGGAAAGTGTCATTTTACATGATTTTAGTCTTATTTGGTGAAAGGCTTCTGTGAAGCTTACATTCTGAAGCCCATGTAAAGTAATCATTGAAGTCGCCAATTGCATTCTGTGTTTTACAG
Seq C2 exon
AAACCAGCCTGCTGACCATTCCTGCGTCAAAACAATGATTCAAGATTCAATGATTATCTTCTTTACCAGTGGAACCACGGGTTCTCCAAAGATGACCGAACATTCCCAGGGCAGCCTTGGTTTTAGACCCCTGTTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000018875:ENSGALT00000003038:3
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=0.043
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(16.5=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(11.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGTCTTAATTCCAGGAACATCCCA
R:
GTCTAAAACCAAGGCTGCCCT
Band lengths:
334-724
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]