RnoINT0032267 @ rn6
Intron Retention
Gene
ENSRNOG00000020884 | Cd6
Description
Cd6 molecule [Source:RGD Symbol;Acc:2312]
Coordinates
chr1:226855647-226857294:-
Coord C1 exon
chr1:226856992-226857294
Coord A exon
chr1:226855710-226856991
Coord C2 exon
chr1:226855647-226855709
Length
1282 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTC
5' ss Score
6.49
3' ss Seq
TGTGTGGTACCTTCCAACAGGCT
3' ss Score
8.95
Exon sequences
Seq C1 exon
AGCACCAGTCCTGGCGCCTGACTGGAGGTGTTGACTCCTGCGAAGGGCAAGTGGAAGTGTACTTCCGGGGTGTCTGGAGCACCGTGTGTGACAGCGAATGGTACCCATCCGAGGCCAAAGTGCTCTGTCAGTCCTTGGGTTGTGGATCAGAAGTGGACCGGCCCAAGGGGCTGCCACACTCCCTGGCAGGCAGAATGTACTACTCCTGTAAAGGGGAGGAGCTCACCCTCAGCACCTGCTCCTGGCGGTTCAACAATTCCAACTTGTGCAGCCAGTCGCTGGCCGCAAGGGTTGTCTGCTCAG
Seq A exon
GTATTCTTTCCTTCCCCAGCCCCTCCACCACTAGATTTAGTCCACAAATTCCGTCTGCCTACAGCTGCCATTTACTGATCCAAGAAGGACCACTGCACTTACCTGTGCATGGTAGACATTAACTAATGGATAGGGTTTTTTTTTTCTGCGATATGGTCAGCTCAGACCCAAATTCGTGGGTTAAGTATTTATCAAGGAAGTCACTATTATGTGCTAAGTAATTGGTGTTCCCTATCTGTTGCAATTGGTTCAGTAGGTGAAGCCAACTTGTTATCCCAAATGTGATGATTTCGGGGAAAAGCCAGGTTGGGAAACACGGATATTAATAACGCGTGAGCCGGCAGCTGGAGCTATAAATCACATGTCGAGCACTGCCAAGCTCTCCGTAGCTTGTTTCACTTTAGCCTTAGACCCACTGTCGGAGGTGGCTTCTCCTGCCCTTCACCAATTCTCAGAGGACACTGACAATTCACAGCATTGGTGTCTTACAGACCACAATGACAAATAAATGCAGTCTGGAAGTGTAGCTCAGTGAAAGACCACTGGGTTCAAACCTCAACACCTCGAGGAAGGAAAGAAGGGAAGACGAGAGGAAAGAAAGGAACACCTAAAATTCTGATGTTTGGCATGGTGAAAGAAACTAAAAATAAATTATTGTTCAAACTCTTGACGTGTTGTCATACACAGTGAGGCCATTATTCCAATTGCAGAAGCTAATAGTGTGAAATTGAGGTTCCGCCCAGTGGGAACACAGTGTTAACCTCCCTGTGGAGTTCAGACCCCTGACTCTGAGCTCCAACCCTGCTGTTTACCAGCCAGGACTGGGACAGTTCCTCAACTTCTGTGGCCTCAGAATAGAGGATGCTTCTCCAGGTAGCTGGAGACTACAGCTAATGGAGGCTAGAGCTAATGGGCTATGTAAGCTGCATATCCTTGGAAGCAGTTAGAAGGGGATGTGGATTATGCTAATGAGGACAAAGCTCCCCAGGTCCCGAAGTCCCAAACAACAAACTGAAAGTTGAGTAGAGAAGGGACAGAGGGTCTGCAGCAGCCTACATAGGCAGAAGAAATGGTTCTACCATCCCCGTTTTAACTGAAGTATTGCCCGGCCAGCTTTCCAGGGGACCCTCCCACGGCTGGCAACCTGGGCTGTTTCTGTACCCTTATGTCCCCAACGGGAATATCCCATGGTTCTAGGGCACTTGTCTGTCTTGTTCAGTTTCTAGGTGCACAGTAGGTAGTCAGTAAACTCACTAAGTGAATGTGTGGTACCTTCCAACAG
Seq C2 exon
GCTCCCAGAGACATCCCAATCTGTCGACTTCTGAAGTGCCTTCCAGAGTTCCGGTCACCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020884:ENSRNOT00000028347:5
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=0.045
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.2),PF054546=DAG1=PU(18.8=28.4),PF151021=TMEM154=PU(15.0=14.7)
A:
NA
C2:
PF054546=DAG1=FE(13.6=100),PF151021=TMEM154=FE(21.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACTGGAGGTGTTGACTCCT
R:
ATGGTGACCGGAACTCTGGAA
Band lengths:
346-1628
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]