GgaINT0124638 @ galGal3
Intron Retention
Gene
ENSGALG00000008932 | F1NV62_CHICK
Description
NA
Coordinates
chr17:1311843-1312752:-
Coord C1 exon
chr17:1312593-1312752
Coord A exon
chr17:1312074-1312592
Coord C2 exon
chr17:1311843-1312073
Length
519 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGG
5' ss Score
5.28
3' ss Seq
TGACTGCCTTATGGGGCCAGTTT
3' ss Score
3.83
Exon sequences
Seq C1 exon
GGAGCAGAACAGCACAAAAGCTGAGCAGGTCTTTGCTGAGGTCAGCAAGGCCATTCGTGAGTTCCCTGTGGACTTCCGCGGAGCTCAGATCCTCACCGGGAATGAGGAGGGCTCCTTCGGCTGGATCACCATCAACTACCTGCTGGAGACACTTATCAAG
Seq A exon
GTGTGGGCCAGAGGAAAGGGCATGGGGGCCTGAGGATATGCATCGCGTATGTATCTTCCTGCCTGAGTAAAGACCAGATTTCTTTATTCCCACTGGGGAGTGAAATGTCATTTTAGAGTGATAGTCACCCAAACAAATGTAGCATGTTGTTGTGAACTGCACCTTTGACTTTACAGGTGTGATTAAGAGAGTCAAGGGCAGGAGGACCTTTGTGTCCAGCTCATCCTGGTCCTGTGCTCTCTGTTTATGTATGGGTTGATTTTGGTATCATGGGGATGCAGCAGTATCAGAGTCCAGAACATTACACTTTTCCTCCTCAAAGTCCCTGGATCCAAGCTGATGTGCAGCAGCCAAGGACCCAAATGTCAGCACTACACAGAGATCTATGTGGGTTGAGGAAGATGTGGGCAACAAGGGGTTAAACAGGAACATAGGATGTGGGAGGTCTCCCCGGGGCTTTTGAGATCACAGAACCTTTAGGGAAGGGACAGACTAACACTGACTGCCTTATGGGGCCAG
Seq C2 exon
TTTTCCTTCGCAGGAAAATGGGAACATCCACAAAACACTGAAGTCCTGGGAGCTCTGGACCTTGGAGGAGCCTCAACACAAATTACCTTCCAGCCTGGAGTCACCATTGAAGACAAAAACACATCTGTACTCTTCAGGCTGTATGGCACCAACTACTCACTCTACACCCACAGCTACCTGTGCTATGGGCAGATACAGGCCTCGAAGAGGCTGATGGCAGCTCTCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008932:ENSGALT00000014518:3
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=0.000
Domain overlap (PFAM):
C1:
PF0115012=GDA1_CD39=FE(12.4=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(17.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGGTCTTTGCTGAGGTCAG
R:
TCTTCGAGGCCTGTATCTGCC
Band lengths:
344-863
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]