RnoINT0122935 @ rn6
Intron Retention
Gene
ENSRNOG00000000763 | RT1-M3-1
Description
RT1 class Ib, locus M3, gene 1 [Source:RGD Symbol;Acc:3494]
Coordinates
chr20:1814661-1815107:-
Coord C1 exon
chr20:1815074-1815107
Coord A exon
chr20:1814913-1815073
Coord C2 exon
chr20:1814661-1814912
Length
161 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TGGTTTTTTTTTTCCCCCAGTAT
3' ss Score
8.98
Exon sequences
Seq C1 exon
GCATGCTCTGATGCTTCTCTCACCATTTAGAAAG
Seq A exon
GTAAGACCTTGCAGGGCCTAACCTGCAGTATGTGGTAGAACAGAGGATAGCCTTTTGGGTTATGGGGACTCTTAAGGGTTGGGACATTTGAGTTTGGATCTTAGAGCATTACCGCTTCCAGAGGATAGGCTGAATATCTTCTGGTTTTTTTTTTCCCCCAG
Seq C2 exon
TATGAAAGCACTGAGTGTGTGGGACTGAGTCTGTTCCCCATAACCGTGTTACCTCCCTTTTCACCAGTACCACAGTGGAATCTGGGACTTCTTCATGCCTTGTGGAACTTTAGTTTTCTATGAGCGGCTTCTTCCCTGGTCAAAATAAGAATGTATATATAACTTTATTTTTTTTTACCTTCTTGTTATAAGAAGTTGGTTGTGTTATTAAAATTTGTAAATTTGAAAGGGAATAAAAGTGAACTTACAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000763:ENSRNOT00000000990:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
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:
GCTCTGATGCTTCTCTCACCA
R:
AACACAACCAACTTCTTATAACAAGA
Band lengths:
236-397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]