GgaINT0053182 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15825204-15825938:-
Coord C1 exon
chr5:15825727-15825938
Coord A exon
chr5:15825319-15825726
Coord C2 exon
chr5:15825204-15825318
Length
408 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTCATTCTACCTTTCTGTAGAGT
3' ss Score
8.64
Exon sequences
Seq C1 exon
CACTTCAAGACTTTTGATGGAGACATCTTCCGCTACCCTGGGCTCTGTAATTATGTTTTTGCATCCCATTGCAACGCTCCCTATGAAGAGTTCAACATCCAAATTAGGCGTACACTGGTGGAAAATATTCTGACAATCCACCGCATTGCCATAAAACTCGAAGGCGTAGCTATTGAGCTAACAAAGGATGTTGTCCTGATCAACAGCAACAG
Seq A exon
GTGAGTTTATTCATACCCTTGTTTGGTAAATACAGATTTCTTTTATTTTTTTTCAAATTGGCCAAGTACTTTCTTGTATACTGAGGAAAAATTGGCATTCTTCAATAAATCTGACAATTTTAACCATAAAAATAATGAATAAATTGCTATTAATTCAAGTCACAATAAATCAATTGTTCCATCAAAGATTACCTCAAAAACAAAATTTCTTTGAGAAATCCCGAGATTGGATTCAAATTTAAATCCACATTTGATGGTACTGGACCATTTTATTTTTTATTTGCTTTTCTTTCCACACATCTGCATTATATCCTTGTAAGATGCTGGAGCACACAAGCCTTTTTTTTTTTTCTCTTTATCAAACATCTGGATCAGAAAATATTTAGTATTCATTCTACCTTTCTGTAG
Seq C2 exon
AGTTCAACTGCCATACAGTCAAGCTGGAATTACTATAGAGAGAAGCAGCATTTATGTGAAAGTTGTCAGCAAAACGGATATTGTATTTATGTGGAATCAACGTGACAGTATCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023539:ENSGALT00000039115:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PU(59.8=98.6)
A:
NA
C2:
PF0009420=VWD=FE(32.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTTCAAGACTTTTGATGGAGACA
R:
AAGATACTGTCACGTTGATTCCACA
Band lengths:
326-734
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]