GgaINT0048324 @ galGal4
Intron Retention
Gene
ENSGALG00000009824 | CCDC173
Description
coiled-coil domain containing 173 [Source:HGNC Symbol;Acc:HGNC:25064]
Coordinates
chr7:18099152-18100030:+
Coord C1 exon
chr7:18099152-18099316
Coord A exon
chr7:18099317-18099748
Coord C2 exon
chr7:18099749-18100030
Length
432 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAAT
5' ss Score
6.41
3' ss Seq
TATTTCCTCTTCTTCCTCAGGCA
3' ss Score
9.8
Exon sequences
Seq C1 exon
ATGAAGATGAAATTGGAGAAGGAGAGAGAGGAAAAAGCAGAAAGTAAAAAAGAACTTCAAGCATTGCTGGAAAAGAACCAGATCTATCTGGAATCAGAAAAAGCCAAGAAACAAAGACAACGTGATGCAAGCATAGAAGTACAGAAAATTCAGATCCAGCAAATG
Seq A exon
GTAAATGGCAGTGCCATACCCTTCCAGTGCCTTCAAAAAGGAGCATAAACCTAACTGACAGTGCTAGTCAGTGTGGGAGTCATCCATACAAACCTATTCCTGCCAAGGAGTGTTGCATGAGTGAAGGCTGGTTTGCAGTGACACATCAGTTCCCGTCCTGTGTTGTCATGTATGGCTGCTGTCCCCTTGTTCCTTGGGGATCTGCCCAGAAGATACAGCAGTGAATGCTGATGTTCATTCAGCTATTCAGTGTACACTTTCCTGTGGTGGGGTGAGCTGGGAATGAACTGGGGAGGAATGATATCTGACAAGCATGGTAACGTCACCTCCAATCTCCTGTAAGCTTACCCTCTCTAAATTTTAACAGACAGTTATGTTGTGAAAGAAATCCTAATCTTTGTTATTCCCTTTTTATTTCCTCTTCTTCCTCAG
Seq C2 exon
GCAGAAAAGAAGGCAAAAGAACAGCAGGAGAAGCAAGCAGACTTGGACTACAATGCTCAGAAAGAGCTTATTGCGCTCCATAAAGAACATGAATTCCAGAAGTATGCAAAGCAAGTAATTGAATCGGTGTCCACAACTACACATCATCTCTATCCTCTCCTGAAAGCTTCCAAAGAAATAACAGGACTTGGAGGTGGCCCATTTTCCAGAGGAAGTGAAGGAACAAATCCTGGTTTTCAAGCACAGGATGTTGCTGAGACCCAATTACCTTGTTGTAGCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009824:ENSGALT00000015973:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.618 A=NA C2=0.436
Domain overlap (PFAM):
C1:
PF138681=Trichoplein=FE(16.1=100)
A:
NA
C2:
PF138681=Trichoplein=PD(12.5=44.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCATTGCTGGAAAAGAACCA
R:
TCCTGTGCTTGAAAACCAGGA
Band lengths:
354-786
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]