RnoINT0030492 @ rn6
Intron Retention
Gene
ENSRNOG00000057740 | Ccdc148
Description
coiled-coil domain containing 148 [Source:RGD Symbol;Acc:1561169]
Coordinates
chr3:45132279-45133351:-
Coord C1 exon
chr3:45133289-45133351
Coord A exon
chr3:45132401-45133288
Coord C2 exon
chr3:45132279-45132400
Length
888 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
TTTTGTCTTTATGAAAACAGATA
3' ss Score
5.04
Exon sequences
Seq C1 exon
ATACGGAAAGCATGAACAGAAGAGACCAGCCATTCACGGTGATTCAGAGGAATGACAGCTCAG
Seq A exon
GTATTTTTTTTCTTACTTCTATCCGTCCTTTCTGATTTATAGCATGTTATGCAGTTTTGAAATGATATAAACTTAGAATGCTGATTTCTATAATATTAATAAGGAAAACTGATTTTGCTTACACGGAATGACCAGCCAGTTCTCTTGCACAGGGTCTGTTTCATTGACAAGTGTGGTCAGGACAATGCTGCCTTCTTCTGATGTGTGCTTTCCTGAAGACATTTGGATTGTTTTATAGCAGAGATTAGCTATCCATATTGATGCAGATGTGCCTTTTGGTTAGAATTACTCAGGTTATTGTGATTTATGTTGTGGCTTTAATGGACTTCTTCCTGAGATTTATCAATAAGGTTAATCTACTAATTTAGGAGATTAGATGTCCAGGGTGGAGAGTACACAAATATTTTTGCACAGTTAGAATCTTATTTAACGATTACATATTTAGTGTTAATTCAAAAACCCTTTTTCAAATTTAGTTTTTGAGTTAGAAATTAATTGATGGCTACAGTATCTCCTCATGTGGTTTGATTAATACATCAATAATGTTATTCTTAAATATTTCCTGTTGATGCCTAACATTTTTTAAACTGTCTGAAATGCAAGTAAATTGAATAGCATTGTCATTTCCGGCACTGGATGCATTCTAGCTCATGCAGAGTTGTTCTTTCTCTTGCCCCTTGGAAGCCATGTTCTACAAGGACTGCAGCAGCCATGATCTAAGAGGGTCTAGACACAGGGTATGAAGTATATCCCAAATGTTGTGACCAACATTTTATTTGTTTTTTAAAAATAAAAATGTGATCCAACCACATTTTTCCCTTTAACGAACTTTTGATTTTGAATGATGTGACACTATTTCCCTGTCATCTTTTGTCTTTATGAAAACAG
Seq C2 exon
ATATCCTGGCAGTCCATATGAAAGGTGGGATGAAGAACTCTAGGTATAAGCCGGCAGACTACCAGCAGTTACGTGCCTTAACCGAAGCCACGAAGTCAGCATCTGCTTCCTCAGAGCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000057740:ENSRNOT00000086371:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.419
Domain overlap (PFAM):
C1:
PF048228=Takusan=PU(14.5=44.4)
A:
NA
C2:
PF048228=Takusan=FE(72.7=100)
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:
ACGGAAAGCATGAACAGAAGAGA
R:
CTTCTGCTCTGAGGAAGCAGA
Band lengths:
183-1071
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]