GgaINT1008544 @ galGal4
Intron Retention
Gene
ENSGALG00000009824 | CCDC173
Description
coiled-coil domain containing 173 [Source:HGNC Symbol;Acc:HGNC:25064]
Coordinates
chr7:18097519-18098685:+
Coord C1 exon
chr7:18097519-18097658
Coord A exon
chr7:18097659-18098492
Coord C2 exon
chr7:18098493-18098685
Length
834 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGT
5' ss Score
7.92
3' ss Seq
ATACTCACGTTCTTCTGCAGAAT
3' ss Score
8.52
Exon sequences
Seq C1 exon
GAACACGTAGCTAACCAGAAAATAATCAAAGCAGTGGAGAAACAAAAGCAAATGGAAGAAGACAATCGGATTAGAGCTCAGTTTAAAGCAAAGCAAACTATTGCCAAGCTGATGAAAGAGAAAGAAGCTGAATTGCGTAG
Seq A exon
GTAGGTTCAAAGCTGGCTTATAAAATGTATCTAAATTAAGAATTACACACTTTTCTTATTCAAATATTTCAGACTGATGACATAACAAAACCCACAATTAGTCTGTAATTAAATTCTACTCAATGGGGCGTAGAGAATTCAGGACAAAAAGGAAGTTCTTTCACGGCATCATTAGTAATAGATCTGTGAGTTAGCAGTAGATCTCCTCGCACCTCAAAGCACAAAGGTTTACAGAAGTGCAAAGTTCTACTCCAGTGTGTTGGGAACAGTGATTTTCTTTATGGCCTGCCAAACCTCCACCATCTCAGCAATTAAAGACAACTAGAATCACAGTTAAAAGTATTTTTGGGCATAAGCTATAATTCTCTGAGATAGATCAAGAAAAATAATCACGCTCCTTAACAAGGCATCTATATTAATTAATTAAATTACTTTATTAATAATGCTGTTAGTAAGGTCTACCTATTTAACACTGAAAGTACTGCATGAATATGCCAGTAAGTTAATCAAACCATTCCTATTTCTGGCCAGTACTTCCTGCATGTCCCTCCTTAATAGCAAGATGCTGGTCAGACTTTGAATGATACAGCACTTTACTGCAACAAAAAATCATCATGTTATGAAAATATAGGGAACACTTATTTGTTAAATCAGATAATTAAAACAAAACAAAACAAAAACCAACAGGAGGAATACAAGGAGATGAAGAAGTGGAGTGGGTGGGCCGGAGAGTGGCAGGAAGAGGTGACAGGCAGCCAGATCGCGGGGTCTGGTAGAAGCAGTGCTTCATGTAGACGAGGTGCATATGTTATGAATACTCACGTTCTTCTGCAG
Seq C2 exon
AATAACACAGGAACACCGGGATAAAATTGTTAGGCAATTAGCTGCCCAAATGAGTGAAGTACTGAAGATGGAAGACAAGCGTATTGCTAGAGAAATTGCAAAAAAAGAAGCTGCACAAGAAAAAGAACAGAAAGAGAAAGAAGCAAAAAAAAAGGCTGTCATTGAGTCTATTGCTGAACACAGAGCCACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009824:ENSGALT00000015973:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.447 A=NA C2=0.446
Domain overlap (PFAM):
C1:
PF138681=Trichoplein=FE(13.7=100)
A:
NA
C2:
PF138681=Trichoplein=FE(19.0=100)
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:
GAACACGTAGCTAACCAGAAAAT
R:
CAGTGGCTCTGTGTTCAGCAA
Band lengths:
331-1165
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]