RnoINT0030475 @ rn6
Intron Retention
Gene
ENSRNOG00000012932 | Ccdc146
Description
coiled-coil domain containing 146 [Source:MGI Symbol;Acc:MGI:1922422]
Coordinates
chr4:10369578-10371442:+
Coord C1 exon
chr4:10369578-10369754
Coord A exon
chr4:10369755-10371368
Coord C2 exon
chr4:10371369-10371442
Length
1614 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
TGATTGTATTTCTTTACTAGGAT
3' ss Score
8.66
Exon sequences
Seq C1 exon
GAAATAGAGAAGAAGACAAAGCTCCTGAAAGAAAGCACTGAAGAACTGCGCAAGGAGGTGATCCAGAAGAGACTGGAGATCAAAAACCTGCGGGAGGACGTGGTGTCCAAGCAGAAGCAATTAATGAAGGAGCAGAAGGAGCTGGAAGAACTGATGGATTATCAGGTTGGCCTAAAG
Seq A exon
GTATGCTGTGCACACTCCGTCAACGTTGAAACATTGCACCCGTGTGGATATAACACACAGGGATGGAGAGGTAGCTACCCTACATGACCAAAAGAGCAGTCACACAGACTCGACGGGTGAGCATCATGAAGGACACTGTCAAATGCAATTTAAAGCCTAAGGATTTACAAAGGGCCTGAGGGTGCTTGCCCGGAAAGGACACGTGAAGGCTCACTCATACTGTCCTAATTTGCAGGCCTAGGCTCAACGAATGGGCCTCCAACATTTGCAGTGAGGGTCACCAACACACATGATTCCTTGGAAGGAACAGAACGTTCTACCCTCTTGTATCTGTCTGTATTGCCTTATACCCATGTGCTTGACTCCACTCCTTTTACCATAAAAGGACTAGGAGCCTATATTAATGTTTTAGGAAGTAACGAATTACAATTAATTTTATTTTGAAAAATGTATAATAATTCTCAAAACAACTTAAAGAACCTAGAGTTATTTAAAGAACAACTCCCAAAACTCACTGTCCTAGAAAATAATTATGATTGGGTCTGACCTTTTCCCCTAAGATCTTAGAGCAGTCGCTCACCACACGCCCATCTTCTCTGGGGATATCAGAACTAAGACGAGACTCCTTTGCCAAGAACCCAGGGAGCTTCAGCTTCTGGCACATCACATGCAGGGATCTCTTCCAAGGGCTTGTACTAAGTTAGCAGCTGCAGCGTTTTACCCGAAGAGGGGCTTCCAAATTGCCATGCCTCAGCCCTGTAAAGCCTGGGTCTGCTCCAGGATTAAGGAAGATCCTACAGAGAGAAGCACTCCACCCTGTCAGTGCAGCGTGGCCTTTAGCTCTCATGCTCACGTGTGGGTCCAGAGCTCAAAATCTATCGAGCACCTCAGATAAGAAGGGTCTCTTTCCTCGCACAATGCCTACAATGAGCTTTCTACCAATGCGTACAGCTTGCAGAGCATGAAGGTCCACGGGTTTAGTTTCCAACCTCGGTCCTGCACGTACGAGCCGCGTGACTGCCTGCAAGTGGTTTAGGGTTTTTTTTTGTTTGTTTGTTTGGTTTTTGTTGTTGTTCTTTTCGTTTGTTTTTGTTTTTGTTTTCCATGTCTCCTTTCACAGTCTGAGGCAGGACTCCCTGAAAACAGTGTCCAAGGCCCTTAATGTGGGGGAAATCTATGGGGCTCACAGCAGGGCAGGACAGAGCTAAGGGAGAAGATGGGCCAGATAGAACTCTAGTTCTATCTGCTGTAGAACTCTAGTCTCAGCCTGGCACCAGAAAGAACCCTAGATCTTTAACTGAACCACAGAGGCCATTCTCCTGAGTCAAAGAGCATGCGGTACAACCTCACACAGCCTCCTCCATACTTCCTTACCCTCTCCCACGCCAGGGAAGAGGGAATCTCAGAGGGGCACCCAAAGCTGCCCTACTCTGTCAGCTGCTTCTTGGGATAGTAACAACCGTAATAATAACCTTATAAGGCCCGTGTGGATATTGGAGGAAATAAAGTGTGTAGGGTAGATGGTAAGAACCCTGTAAGATTTTCTTTTTTCTCTCGTTTGAATTGCTTGCTTAATTGACTACACAGCTTACCATGATTGTATTTCTTTACTAG
Seq C2 exon
GATGACGTGGTCCATCATCAAAGTGTTCCTGTACAAATTACAAAGGAGATAGAAAAACTAACACGCAGAAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012932:ENSRNOT00000017374:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAATAGAGAAGAAGACAAAGCTCCT
R:
TCTGCGTGTTAGTTTTTCTATCTCCT
Band lengths:
246-1860
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]