GgaINT0048323 @ galGal4
Intron Retention
Gene
ENSGALG00000009824 | CCDC173
Description
coiled-coil domain containing 173 [Source:HGNC Symbol;Acc:HGNC:25064]
Coordinates
chr7:18098493-18099316:+
Coord C1 exon
chr7:18098493-18098685
Coord A exon
chr7:18098686-18099151
Coord C2 exon
chr7:18099152-18099316
Length
466 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
3' ss Seq
CTCTATTTTATAAAATGCAGATG
3' ss Score
5.85
Exon sequences
Seq C1 exon
AATAACACAGGAACACCGGGATAAAATTGTTAGGCAATTAGCTGCCCAAATGAGTGAAGTACTGAAGATGGAAGACAAGCGTATTGCTAGAGAAATTGCAAAAAAAGAAGCTGCACAAGAAAAAGAACAGAAAGAGAAAGAAGCAAAAAAAAAGGCTGTCATTGAGTCTATTGCTGAACACAGAGCCACTGTG
Seq A exon
GTAAGAAATCTAACCTGTTCTCATCCCTCTTTCTGGCATGTACTTAGGAATACCTTCTAGGAACACTGTGGTTTTTAGCGTGCTAACTGTTAGTGAGACATACCCACAAGTTCTCAGTAGCTGCCTCTCATATTTATGATTTACAGTTACACATCTAACACCTTAAGCAAGCCACAAGGTACCTGGGTTCATCTGTTTGAGTTTGAAAGCTCTGTAATTGTTAGTAATTTGTGCAAACACTTCTCAGTCTCAGCCCTGCTTCCTGCAGCCGAGGAGCATGTCAGTGCTGCCAGAAACTGGGCCTGGACAGAGTGCAGCTGCTATGATCCAGCACATCAGAGCACTGGTGTGGGACTGCACTCTTATTGCTTCTGGATCTGGCCTGAGAATGGCTGGTTGAAAGGCATGGCTCCTCAAACTAGCAGGGTAACTATTTGGTTAATCCCCTCTATTTTATAAAATGCAG
Seq C2 exon
ATGAAGATGAAATTGGAGAAGGAGAGAGAGGAAAAAGCAGAAAGTAAAAAAGAACTTCAAGCATTGCTGGAAAAGAACCAGATCTATCTGGAATCAGAAAAAGCCAAGAAACAAAGACAACGTGATGCAAGCATAGAAGTACAGAAAATTCAGATCCAGCAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009824:ENSGALT00000015973:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.446 A=NA C2=0.618
Domain overlap (PFAM):
C1:
PF138681=Trichoplein=FE(19.0=100)
A:
NA
C2:
PF138681=Trichoplein=FE(16.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
ACACAGGAACACCGGGATAAA
R:
TGCTGGATCTGAATTTTCTGTACT
Band lengths:
350-816
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]