RnoINT0030695 @ rn6
Intron Retention
Gene
ENSRNOG00000052954 | Ccdc173
Description
coiled-coil domain containing 173 [Source:RGD Symbol;Acc:1308818]
Coordinates
chr3:56024399-56027999:-
Coord C1 exon
chr3:56027773-56027999
Coord A exon
chr3:56024573-56027772
Coord C2 exon
chr3:56024399-56024572
Length
3200 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TGTATTTTGTCTTTTCACAGGGA
3' ss Score
10.24
Exon sequences
Seq C1 exon
GAATGGAGAGCTATGAAAAAGAAGAGATTCCCTATCCACCTCTCCTACCTAGCACAGTAGATCTCCAGCAGGTCACCATCATTCCACATGCTGAGTGGGAAAGGATTCGGGATAGCCTCAACAAGTTGACAAGAGAAGCAGCGGTCCTTCGTGCAGAAAGAACAGCAAAGAAAAATATGCATATGAAATCCCAAGAATTGGTAAAACACTGGACTAACACATACGCA
Seq A exon
GTAAGTCTCGCCCTTCCAGAACTCATATGCTTTGAACAGTAACCATTGCTTCTGAATAGTGCCTTGTACCTTGTATAATTTTATGTTCAAACTGTCATAAGTACACTAACACACATTTTAAAGATCTTTAGAAAAAATACCATAAATGACTCAATTAAGGGAAACATTTTGTTAAATGTTGGCACGTACGTGCCTCCGAGACCATCATTAGAGTTAAGATAACGAACATACTCAGCACCTAAAAGCACCTTTGTCACTCCTCCTTAGAACTGCGTAGGTCACCACTACCCTTCATTGCTGTAGATTTTATTCTCCCCCTTTGAGAGCTCGATGCACTCTTTGTATTGTTGAGTAACAGTCCAGGGGTTGGTACACTACAGTTTACCTGCTCACTTGATGGTATGACATCAACCAAATGTTGACATCTGGGTTGTTTCCATCTTTTGATTACTATAAATATAGTTGCTGTGAACATTCATATAAGTCTGTATATGGACATATATTCCCATTTCTCTTAAGTAGATATTTTAATGTGAATATATACAGTGAACTCATAATCAGTGTATATAACTTTGTAAGTGGGTTAAAAGGTAGGAGGAGAGATGGCTCAGCAGTGCTCGTAGTTCTTTCAGAGGATTTGCACTTACTTTTCAGGACTCACATTGAACAGCTCACAATCACCTGTAACACCAGCTCTAGGAGATCTGACAGCCTCTCCTGGCCTCTTGAGACACCTGCACACATGTATACACACACACACACACACACACACACACACACACACACACACACAAATCTTTAAAAAATTAACTTTGTAAGAAATTCCAAAGCAATTGTGATTTTATATCTCCCCTCCCACCAGCAGGATGAGAGTCCTGTTGTTTCTGTATTCCCATCAATAGTCAGTATGGTTAGTCTTTCTCATTACAGACATGCTAATGGGTATGAATTTTTCCATATGGCTTGAATTCAAGTTTTCCTAATCACAAATGTTAAATATTTTAAATATAATATTTATTGTACATCCATGTATCATGCACATATGGAGGTCAGAGGACACCTCATGGTAGTCCTTTCTCTCTCTCTCCACCATGTGGATTCTCAGAATCTAACTCCTGTTGCCCGTCTTGGTGGCAGTGCTTTCTCACCAGCTGTCCTAGCTAATTCTCAATGTGACATAGCCTATAATCACCTGAACTGAGTAATTGTTTCCAACAGATTGGTCTGTGAGTATGTCTGTGAGGGATCATCTTGACTGAAAGTTGATGTAGGAGGCCCCTCCCACTGTGGGCAGCACCGTCCCTAGGCAGGTGGTCCTGACCCGTAGAAGGAAGCATGGTCCCTGACCTTGAGCCTGAACAAGCACAGGGTAAGCCAGAGAGTGGAGCTCTTCCATAACATCTGCTTCAGGTTCCTACTTTGAGTTCCTGCGGTAACTTCCCTCAGTGATGGATTGTGACCTTAAAGTATAAACCAATTAAACCCTTTCCTCACCCAAGTTGCTTTTGGCCAAAGTGTTTTTATCACAGCAATGGAGAGGAAACTAGACTGTTGGCTAAACATCTTTTGATGAACTTGCTTTCCACCTCTTCAAATTTCCATGATTAGATTTTTTTCTTCTATTGATTTTAGAGAACTTTAAAAACATATTCTGAAGATAAGTGCGGTGGCACATCCTTATAATCCAAATACTGAGGAAGCCCAGAGAGACCTTGGGTTCAAGGCCAACCTGGACTACATAGTGAGTTCAAGACCAGCCTGATCAACATATCAAGACCTTGCCTCAAAAATCAAAACAACAAAACAACAATAGCAAAAACAAGGCTAGGAATGTAGAGCAGCTGGTAGAGTGTCTGTTCAGCATGCATGGAACTCTGGACTCAGTCTGTAATACCATTTAAATCCAGGCATGGTGGTCCATACCTATAATCCCAACATTTGGAGATGGCAAAGGGAAAAATGAAAATTCAAGGTCATCTTTGACTATACAGTAAGTTTAAGGCTAGCCCAGACTCTATGATACCCTGTCTCAAAGGAGACATCTATATTTGAAAATATTTCCTCTCAGTATATATCTTGAATTATTAACTTGTCTTTTAAAAGAGTTTTGTTGGTGGTGGTAGTGGATTTTTTGTTTGTTTGTTTGTATTTTGAGATTCCCTTATACTGTCCATTGTGACCTCTGTCTTAGTTAGGGTTTCTATTGCTCTGAAGACACTCCATGACCATGGCAAATTTACAAAGGAAAATATTTAATTGAGGCTGGCTTACATTTCAGAGGTTTAGTTCATGGTCATCATGGCATCTTGCAGGCAGATACGGTGCTGGAGAGGGAGCTGAGAGTTCTACATCCAGCAGCAGGAGAGTGTGTGTCACATTGGGTGTAGCTTGAGCATATGAGACCTCACAGGCCACCCCAACAGTGACACACCTCCTCCAATAAGACCACACCTCCTAATAGTGTCACTCCCTATGGCCAAGCATTCAAATACATGATGAGACTTTGGGGACGATTCCTGTTCAAACAGCTTCAACCTCAGACTCAGTCTCAAGTGGTCCTCTTGCCTCTACTTCAGAGTAGCTGGAGTTACAAGTAGACACTGCCACGATTAGTCAATAGGAAAGTTTTTAATGTTAGTGAAGTCTTAGGATTGGAGAGAGAGAAATTTATTATATACCCCATTAATAGTTTTGGATTTCAAATCATGTAAATGTACTACCCATCTGAAAAATTAAATTAAAAATTTGTTCAGTGCTAGAATGATGGCTAAGTGGTTAAGAACACTGATTGCTCTTCCAGAAGATCTGGGTTAATTTCCAGCACACACATGGCAGTTCACAATGTTCTGTAACTACAGTCCCAGGGTATCCAACACCTCTTCTGACCTCCTCAGGTACCAGGCAAGCACGTAATGCGCAGACATGCATACTGGCAAAATGGCTGCGCACATTAATTAACTAAACATTATTTAAAAATTTATTCAATGTGTATGCTCATGTTTACTAATGAATTATGCAAACAATAAAAATTCATAATGAAATTTAAGTAATCATGTACTGATATTAACTCATGGGCCAATTAAATTGAAAAATAAAAACAAAAGATTGCTTTTGTGTTGGTGTTTGACCACAGGGCCTTGGGGTTGATCCCCAACACTGAAAAAATATAGAGAGAAAAAGTGTATTTTGTCTTTTCACAG
Seq C2 exon
GGAATGAAAGAACAGAAACTTAGAGCCAAGCAGAAGCGTGATGAAGAGCTTGAGGCTGAAAGACAAATTCTTGATCTGGAGGAAGAAATATACAAACAAGGAGAAAGGAAGAAGGCCATCGAAAATGCAAAGCAGTATCAGTTTTACCAGACAGAGAGAGTGAAACGCTTTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052954:ENSRNOT00000089637:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.336 A=NA C2=0.276
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138681=Trichoplein=PU(2.7=15.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]