GgaINT0092067 @ galGal3
Intron Retention
Gene
ENSGALG00000015142 | F1NJD5_CHICK
Description
NA
Coordinates
chr2:109266349-109266841:+
Coord C1 exon
chr2:109266349-109266483
Coord A exon
chr2:109266484-109266655
Coord C2 exon
chr2:109266656-109266841
Length
172 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
AAATCTTTTTATCCTTGCAGTTT
3' ss Score
8.18
Exon sequences
Seq C1 exon
ACACAAAGTAGCTATTCTTTGGTGGTGGAAGGGAAAGACCGTGGTGGTGCAGCAGATGGGAATGGTGCAACATGCTCTGTAGAAATCAAGATTTTGGATGTCAACGACAACCTGCCTGTGCTTGAAAGTTCTGCA
Seq A exon
GTAAGTACATTCACTTTACTTTTACTTTACAAGTACTTCACATGATATTTGGTGTGTTCATACACTTGCTGGTATCCCGTTGCTTAAGAAAACCTTATGCAGATTTTCTTGTACTGATGAAATGGGGTAGATCGGGACATCTTTTTACATTTAAATCTTTTTATCCTTGCAG
Seq C2 exon
TTTGAAGGAAGCGTTGAAGAAAACAGAGCAAATGTGGAAATTCTGAGAATAAAAGTATTTGATAAAGATGAGGAGTTTTCTGATAACTGGTTGGCAAACTTTTCATTTGTCTCTGGTAATGAAGGCGGTTATTTTCGTATAGTAACAGATACCAGAACAAATGAAGGAATTCTGACTCTTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015142:ENSGALT00000024433:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=PD(32.0=68.9)
A:
NA
C2:
PF0002812=Cadherin=PU(58.7=98.4)
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:
TTGGTGGTGGAAGGGAAAGAC
R:
CCGCCTTCATTACCAGAGACA
Band lengths:
245-417
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]