DreINT0042448 @ danRer10
Intron Retention
Gene
ENSDARG00000077928 | ccdc173
Description
coiled-coil domain containing 173 [Source:ZFIN;Acc:ZDB-GENE-081104-457]
Coordinates
chr9:48528556-48530585:+
Coord C1 exon
chr9:48528556-48528695
Coord A exon
chr9:48528696-48530392
Coord C2 exon
chr9:48530393-48530585
Length
1697 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTC
5' ss Score
7.04
3' ss Seq
TGTCTTTATCTTTGCTTTAGAGA
3' ss Score
9.13
Exon sequences
Seq C1 exon
GATCTTTTAACCAACAGAGAGATGATGAAAGCAACAGAAGCGCAGAAACTGCAGGAAGAGGAGGAGAAATGCAAGCAGCTCGCCAGCCATAAAGAAAAAATGATGAAAATGAGGAAAGAAAAACAGGAGGAGATTTTCAG
Seq A exon
GTACTCCAGTCTTATTCATTCATTAATTTTCTTGTCGGCTTAATCCCTTTATTAATCTGGGGTCACCACAGCAGAATGAACCGCCAACCTATCTAGCAAGTTTTTACGCAGCGGATGCCCTTCCAGCCGCAACCCATCCCTGGCAAACATCCACACATACTACGGACAATTTAGCCTACTCAATTCACCTGCACCGCATGTCTTTGGACTGTGGGGGAAACCAGAGGACCCAGAGGAAACCCATGCGAACGCAGGCAGAACATGCAAACTCCACACAGAAACGCCAACTGAGCCAAGGATCGAACCAGCGACCTTCTTGCTGTGAGGTGAACATGCTACCCACTGCGCCACTGCGTCACCTACTCCAGTCTTATATTTAATCTTTTTTTATTCATCATTTAGGTGTAAAATAAGTCGTAAATACCTTTGCAGTGATGCACTACAGTCATTTATATGTAAATCCTCTACATAGCAAAAACACATTGAATATTATGACAGAATATAACTGTCAAAGAGGCAATGTTATCATATAGTAGATTAAGGTAGACCCAATGACAGACCAGTCTCCGCATTGATCTTGTGGACCAGCCTGTACACCCACCGGTGACCTACTCAAACCTCCAGCTTCTCCACGACGGACGTCCAGCGTTCTCCAGCCTCCAGCACCTAGACTGCAGCTCTGCAGCACAAGAAGTCTGGCCAGAGGAGAAATGGTCATGCCCAACTGAGGCTGGTGTCTTTCGAGCTTTTTCTTCTTCACTTTTGTCAATTGGAGAAGTTTGTTCCTTGCCACTGACGCCACTATCTTGCTTGGTTTGGGATTTATGGAGCTGCGCATCGATAGATTTGCTCTCAAAATTAAACCACACTGAACTGAACTAAACTAAACTGCTACTCTGAAAACTGGACTGACACTGTTTCAATTCACTATAATCTTCTATGCGAAGCTGCTTTGCCACAATCTACAGTGTAAAAGGGCTATAGAATTAAAGATGAATTGAATTGAATAGTTTTGTGTTTTTAATTAGTTTTATTTTGATGCTATTTTTAATTTTACTGTCAATTTCAGTTTAGTTTAGTTAATTTCAGTTCAGTAGTAAAGTCAACTTTTTGATATGAAGCCAACAGGTTTACTCACTTTTTAGGTAGAGTAAATGATCACTTGGGCGGCACGGTGGCTCAGTCTTCAGCACTTTCGCCTTACTGCAAAAAGGTTGCTGGTTCGAATCCCAGCTGGGCAAGCTTGCATGTTCTCCCTGTGCTGGCGTGAGTTTCCCTTGAGTGCTCCAGTATCCACACGGTGCAAAGAAATGCACTATAAGTTAACTGGATGAACTAAATTAGCCATAGTGTATGAGTGTGTGTGTGAATGGTGTTTTCCCAGTACTAGGTTGCGGATGGAAAGCATCCGCTGCATAGAACATATGCTGGAATAGTTGGCGGTTCATTCCGCTGTGGCGATCCCTGATAAATATTGGTTGGTAAACCTTTCATGAAACATTTTTGAATAATAACACAAATCACATCACGTTATTTCCAAAAATTATGCTTTAATGTGCACTCTCATAAATGAAGGTACAATATCTGCCACTGGGATGCATTTTTGTACCTAACAGCTACAGATTTTTACTTTTTAGATACTAAGTGTGATGCGTGGAAATCCTAGATTGGACTTTGTGTCTTTATCTTTGCTTTAG
Seq C2 exon
AGAGCTCCAGAGACACAGAGAGACGATAATCCAGAAGTTAGCAGTACAGAAGCAGCAGCTGATCAGCAATGAGGAGGAGATCATCGCCAAAGCAGTGTCTGAACGGGAGGAAAGACTGACCAGAGAACAACAGGAGAAAGAAAAGAAACACACAGACATGCTCAATGCCATTGCTGCACACAGAGAATCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077928:ENSDART00000145972:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.989 A=NA C2=0.638
Domain overlap (PFAM):
C1:
PF138681=Trichoplein=FE(13.5=100),PF112363=DUF3037=FE(59.0=100)
A:
NA
C2:
PF138681=Trichoplein=FE(18.7=100),PF112363=DUF3037=PD(33.3=40.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAACCAACAGAGAGATGATGAAAGCA
R:
CATGGATTCTCTGTGTGCAGCA
Band lengths:
326-2023
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]