GgaINT0125928 @ galGal3
Intron Retention
Gene
ENSGALG00000001889 | CARD9
Description
NA
Coordinates
chr17:8598907-8599598:+
Coord C1 exon
chr17:8598907-8599090
Coord A exon
chr17:8599091-8599460
Coord C2 exon
chr17:8599461-8599598
Length
370 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
AATATTGCTGTTTGTTCCAGGTG
3' ss Score
9.91
Exon sequences
Seq C1 exon
ATGCTGGAAGAAGATAATGATGAGACGTGTTGGAATAGCCTGGAAAACTTTCGGGTGAAGCTGATCTCAGTGATAGATCCTTCTCGTATAACACCTTACCTTCGTCAGTGCCAGGTGATAAACCATGATGATGAGGAACAGGTTCTCAATGACCCCAGCCTGGTCATGCGCAAACGCAAAGCAG
Seq A exon
GTGGGTGAAGTGCAGCCCTGGCTCTTCCAACTCAGCCCATTCTGTGATGGCATACCGTTCTGCCTTTGGTATCTGGGAGCAGAGCCTCAAACTGCAGAGAAGAAATTGCAGTGCTCCTCTTTAACTTAAGTTAAGTAAAGTGCCCTTCTGAGATGAGGGTTTTGCACCCGCTGTAGTAGAAGCTAGGTACAAGGTTTAGTGTTAACTGTTCCTTCACAGCTGAAATACTCTAGTTTTGTTATCCAGCGTTTGAATTGTGTGGGAGATTTAATCACAGAGACACTGTGTGGGGAGATAGGAGCAATTCTTTGTTCTGTTAGAAATGGGTAAAGAGAGAAATGAATTAATAGAATATTGCTGTTTGTTCCAG
Seq C2 exon
GTGTTCTTCTGGACATTCTACAGCGAACAGGGCGCAAGGGCTTTGAGGCATTCATGGAGAGTCTCGAGCTTTACTATCCACAACTGTATAAGAAAATAACTGGGAAGGAACCAAGCAGGGTTTTTTCTCTGATTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001889:ENSGALT00000002925:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061916=CARD=PU(58.6=82.3)
A:
NA
C2:
PF0061916=CARD=PD(40.2=74.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGGAAGAAGATAATGATGAGACG
R:
CCTGCTTGGTTCCTTCCCAGT
Band lengths:
302-672
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]