RnoINT0122553 @ rn6
Intron Retention
Gene
ENSRNOG00000005818 | RGD1563349
Description
similar to RIKEN cDNA 9330182L06 [Source:RGD Symbol;Acc:1563349]
Coordinates
chr4:21637462-21638490:-
Coord C1 exon
chr4:21638385-21638490
Coord A exon
chr4:21637615-21638384
Coord C2 exon
chr4:21637462-21637614
Length
770 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
CTGTTTTCCTTTTCGTGCAGGAG
3' ss Score
9.93
Exon sequences
Seq C1 exon
GTAATGCTGAAATCAGGCACAAATATTCTGTACTGGAGGACGACAGGCATCCTTATGGGTTCTAAGGCAGTCAAGCCTGTGCTAGTAAAAAATATCACCATTGAAG
Seq A exon
GTATTTCATAGCTATGTGCCTCAGGACTCACTTGTCCAATTTTATTGTTGACATATTTGTTAGCATGTTGGTTTAACTGACCTAAGTATTCATAATAAAGACAGATATCAGATATCATGCATGTCTAAAGACCTTAGTTTATGTCCAACAAATTGATTAATCAGTTTTCTCTGTCCTTCTGCCCTCAAACAGAATTACCTAATAGCTGTAAAGCAGTAAACACAATAAATGGCAATCTTTGGTGGTTTTTTTTAAATAAAATAAAGGGGACTTGTTTACGAGAGCCCATTACTCATTAGAGATATGTAAATTATACTGGTTAATCTGATCATTACTATATCCATAAAAATAATAAGAGTCTGGCTGTTTCCTAAACCTCTGTGCCTTTCTGAGCCAGATGGGTCACTTTTGGCCCAGCTGAGCCACTAATAAACCCTGTCGTGGCTCATTCTCAAGTAGACTCTATCTAGTCACAGCAGCAATTCTTCTTTATTAGAGTTTGGTATGTTTTCCCAGAACCCATATGCTTGCTCCCAAGATGCTAGCTCATTAGTCATTGGGACATCTGCTGGACCAAGCTGGAATCTCAAACCAATAGCCATTTCTAGGGTCATTCTTACTTGCTTGCACACCATCAATTTTCCCTTGTTCCAAGTAAATAAAGATTGTGGGCTCAAATTACTATTGCTATTTCTGTCTTCTCTGCAGAAGCAGCAAATGGTCATTGTACTGGGTTCTCTTCTCCAAGCCCTGTTTTCCTTTTCGTGCAG
Seq C2 exon
GAGTGGCGTATACCTCGGAGTGCTTTCCATGTAAGCCAGGCACTTTCAGCAACAAACCAGGCTCATTTAACTGCCAAATGTGCCCCAGGAACACCTATTCTGAGAAGGGTGCTAAAGAATGCATCAGGTGTAAGGAGGACTCCCAATTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005818:ENSRNOT00000007723:5
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=0.000
Domain overlap (PFAM):
C1:
PF076998=GCC2_GCC3=PU(0.1=0.0)
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=63.5),PF075629=NCD3G=WD(100=55.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTAATGCTGAAATCAGGCACAA
R:
AGTCCTCCTTACACCTGATGCA
Band lengths:
247-1017
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]