GgaINT1008543 @ galGal4
Intron Retention
Gene
ENSGALG00000009824 | CCDC173
Description
coiled-coil domain containing 173 [Source:HGNC Symbol;Acc:HGNC:25064]
Coordinates
chr7:18094592-18095626:+
Coord C1 exon
chr7:18094592-18094808
Coord A exon
chr7:18094809-18095452
Coord C2 exon
chr7:18095453-18095626
Length
644 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
AATTTTTATCTGCATTGTAGGGC
3' ss Score
7.64
Exon sequences
Seq C1 exon
ATTTGAAGAAAATAACATTCTAGATGGATGTTTTCTTCCAAATGACGTAGATCTCCGTCAGGTAATTGTATTGCCAAGAGCAGAGTGGGAAAGGATGCAGGAGGGCCTCGGCAGCATGAGCAGAGAGGCAGCACGCGTCCTCGCTGAGAGGAAAGAGCGACAAGAAATGCACTTACGCTCCAAGGCGGCTGTCAGAGACTGGACGAACACCATTATG
Seq A exon
GTAAGCACTGCGTGCGTTTCTACACCAGGAGATCTGTTTTCATGTATGCAAAAAGGGAAGAGCCGAGCCGTGTGGTGTGATCGACGTGCCCAAGGCATGGGATGCTATCCAGAGAGACCTAGACGGGCTCGAGCAGAGGGCCCAGATGGACCTCACGAGGTTCAAGACATCCAAGCGCAAGGTCTCACACAGGGGTTGTAGCAACCCCCACTAACAATGCCAGGCGGGGGATGTAAGGACAGAGCACAACTCTGCCGAAAGGACTTGGGGGTACTGGTGGATGGCAAGCAGGGCACGAGCCGGCAATGTGCCACTGTGGCCCAGAAAGCAAACTGTATCCTGGGCTGCATGAAAAGAAGCGTGGCCAGCAGGGTGAGGGAGGTGATCTGCCCCTCTGCTCTGCGCAGCATCATTCTACGACTCTAAAACACAATAGTATTTCCAGGTGTAATCCCTTAATTTAACAGTTGCTTTTAAACATGTATTTTAACTAAGCTCCACATAAATGGTTTAACTGCCAAACCTGAAATGCAAAAGAAGAACAAAAATCATGGAGTGTGCTGTCCTGAGAAAGGTTTATACATTTTTAACCCATGATTTTTAGACGTGGTTTATAAGAAGGTGAATTTTTATCTGCATTGTAG
Seq C2 exon
GGCCAGGCACAAAGGAAACTGAAAGCCAAAAAACTCCGTGAAGAAAAGCAAGAGGAAGAAAGAAAGTTACTTGATTTGGAAGAAGCAAAATTCCAAGCAGCAAAATGGAAGGAGGCCATCGATAAAGCAAAAACTTATCTGTACCACCAGAACGAAAGAGTGAAAGGGCTGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009824:ENSGALT00000015973:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.192 A=NA C2=0.138
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138681=Trichoplein=PU(2.7=15.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACGTAGATCTCCGTCAGGT
R:
TGCAGCCCTTTCACTCTTTCG
Band lengths:
348-992
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]