GgaINT0135642 @ galGal3
Intron Retention
Gene
ENSGALG00000003483 | GOGA7_CHICK
Description
NA
Coordinates
chr22:2634635-2635263:+
Coord C1 exon
chr22:2634635-2634787
Coord A exon
chr22:2634788-2635161
Coord C2 exon
chr22:2635162-2635263
Length
374 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
CTGTGTTGTTCTATTATCAGGTT
3' ss Score
9.36
Exon sequences
Seq C1 exon
ATTGATAGGCAGCAGTTTGAAGAGACTGTCCGAACGCTGAATAACCTTTATGCTGAAGCTGAGAAACTTGGGGGCCAATCCTACCTTGAAGGGTGTCTGGCCTGTCTGACTGCCTATACTATCTTCTTGTGCATGGAAACACATTATGAGAAG
Seq A exon
GTAGGTTTCTTTTGTTTTTCTTCTTTCTTAGAAGGCAGTATATCCTACAGACTCCAGATGATTTATTTCCTTTTAGGTTTTCTGTGACTTGTACTATCATTGTATAAATTCCATATAGACTCTGGATCTTACTACAGGGTGACTTAGCATGTGCAGACAAGTTTGTCTGATATGAGTTACGTGAGCAGTGTAATATTTTCTGTACATCAAGGAATAATGCAATTTCTGTCTCTAGTGGGTATTGGTGCTCCTATGCTGAGTTCTCCTAATATTGTTATATTTGTGGTATTGCTGGGCTATGGCTCTAAGGTAGGAAAACCTAATTAAGAAGCCTGATTTCATAAACCGTGACTTCTGTGTTGTTCTATTATCAG
Seq C2 exon
GTTCTAAAGAAAATTGCCAAGTTCATTCAGGAACAGAATGAGAAGATCTATGCTCCTCAGGGCCTCCTTCTGACCGACCCCATTGAAAGAGGACTAAGAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003483:ENSGALT00000005511:2
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:
PF102564=Erf4=FE(43.5=100)
A:
NA
C2:
PF102564=Erf4=FE(28.7=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:
TTGATAGGCAGCAGTTTGAAGAGA
R:
AACTCTTAGTCCTCTTTCAATGGGG
Band lengths:
254-628
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]