RnoINT0032218 @ rn6
Intron Retention
Gene
ENSRNOG00000007917 | Cd46
Description
CD46 molecule [Source:RGD Symbol;Acc:3061]
Coordinates
chr13:113811496-113813319:-
Coord C1 exon
chr13:113813217-113813319
Coord A exon
chr13:113811585-113813216
Coord C2 exon
chr13:113811496-113811584
Length
1632 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CTTTTTCTTTGTTCATCTAGTTA
3' ss Score
8.08
Exon sequences
Seq C1 exon
AAGTTCAATGTACTATGTTACAGGACCCTTCGTTTGGCAAAGTACACTACATAGATGGTAGATTTTCATGGGGTGCTCGAGTTAAATATACTTGTATGAATGG
Seq A exon
GTGAGTTGCTCCTGATTCCATTGTTTTACTTCTCTTTTTAAGCATTCAAATAAATATACTTTAATTTTGCTTCTATATGACAAGTTGTACTTCTAGCCAACCTCAAAGCACACCCAATATTTGGATACTTTATGGAGATAGGAGGGATATTTAATAAATAAATAAATTTGAGGAAAACAAGTCTGTATAATATTTACTATATCTAGCAATAAGTCTATGATAAACATTACGAGTGGGGAAATCTTCCAGGGGTAATGAGTCAGACTTGTAATTCCAGCACTCAGGATGAGGCAGGTGGATCTCCATGAGTTTGAGCACAGTCTGGGACACACACTGAGTTCCAGGCCAGTCTGGGATACAGAGCCAAAGAGGGTGGGTAGTTATGGTGACCCTATCCTTCACAGTCAGGAATATCCACTGCCAACTCAAGGTTGAAATGAGGCTATCATGAAATTGAGGTAGAATTGCTAACCAAAGGAGAATTCTGGAAGATAGTAACAAGTCAAAAATTACTGACTCATTTAACCACCATGTGACAGGAAATTTCAGTTGGAAAATAAGATTTTCCAACTACTTAACCTGAAGTGTCTAAAAAGGAGGCCTTAGCCACCGAGTAAGTCTTTATTTCCTAAGGCTCTCTCAGAAGTAATTATGAGTCTTGGGGAAAGTAGGCTATGACTGTAAACAGAGTTACATTGATAATTTTTTAACTGTCCCATAGAAACACATTCAGTTAAAGCTATGTGGAGGAAATTTCCTAGCCACTTTTAGGGAATCAAACATTCAGGCCATAAATCTTTCCTAAAGACAGTGATCTTGTTGAGAAACCCAGTAGATACAAAAAAGCTATTGAGCAAAATAACAAAGAATACCAGATAAGAATACTTCATAGTGGTGACGTGAGGGTCCAGAAGTGGATTTAAATCATGGGAAGACTTAATAAGATTAATCCTGAGCTGTTTCTGGAAAGACATTATAATCATGAAATTAGTAAGAGTTAGCATTATTTCTACTTGCTGTGTACCAGACTCTAATTTATCTAATATTCTTGAACCGTCCTATGAATGTTTGATTTTTTTATTTTTTTGAGACAGGGTCTCACTATGTAGGCCTGGAGCTTTCTGTGCAGACTAAACTGGCTTTGAACTCATAGAAACATGCATGCCTCTCCACCTCCTGGGTTCTGGAATTAAACTTGTGTGCCACCACACCTAGCTATTTGTATGTTTCTAGTTGAGGAACAAAAGAAACTTTAAATGGTTTGCTGAAGGTTAAGTGGCCATCAGTCACAGAGCTAGAACTGGAGCTCAGACAGTCCTTCCTAAGGAATCATTTCTCCTCTGCTTCATCCTCCCAGAGCAGGACAGATAAGCTAAGGCACAGAAGCATATTAATATGACTGTAGGAGATAACATATCAGATGTTCCTAGATATGACTGTGTGTTCACAGACAAACCCTTCATTTAATTAAAGTTTATTTCGATTTATTTAATACTTTCATTTTACCTTAAAAAAACCCTACTCCCCAAACTACTATATTAAGGGGAAAAAACTATTTAAAACTGTCCTTCACTCTTGTGTACACCTTACCAGCTACCAAAGAAAAGAGTAACTTTTTCTTTGTTCATCTAG
Seq C2 exon
TTATTACATGGTTGGTATGTCAGTTCTACAGTGTGAGCTTAATGGCAACGGTGATGCATTCTGGAATGGCCATCCCCCAAGTTGTAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007917:ENSRNOT00000057151:3
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:
PF0008415=Sushi=PU(51.7=88.6)
A:
NA
C2:
PF0008415=Sushi=PD(46.7=90.3)
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:
GTTCAATGTACTATGTTACAGGACCC
R:
TTTTACAACTTGGGGGATGGCC
Band lengths:
190-1822
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]