RnoINT0122550 @ rn6
Intron Retention
Gene
ENSRNOG00000005818 | RGD1563349
Description
similar to RIKEN cDNA 9330182L06 [Source:RGD Symbol;Acc:1563349]
Coordinates
chr4:21584369-21586204:-
Coord C1 exon
chr4:21586026-21586204
Coord A exon
chr4:21584547-21586025
Coord C2 exon
chr4:21584369-21584546
Length
1479 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
ATTTATTTACCCCTGCTTAGGCT
3' ss Score
6.01
Exon sequences
Seq C1 exon
GAAATCTTATATGTATGGAATGAGCCTAAGTGGTGCATTAAAGGAATTGCTTTGCCCGAGAAGAAATTGTCAACGTGTGAAACAGTTGACTTTTGGCTGAAAGTGGGAGCTGGTGTTGGGGCATTCACAGCTGTTTTGTTGGTGGCTTTAACGTGCTACTTTTGGAAAAAGAATCAAAA
Seq A exon
GTAAGTAATCTCACTAGATGATCTTATAAGAACTGGAAAGTCTGTTTATACTATGAGAATTTTAGACATAATTGTGCATTGCCCATTCTTTTTGTGCCACGAGACATTTCTGGTAAGGAAAGTATAGACAAGGAATTTGAGAAAATAGGGAGACTAAGCAAATGGGCAAATATTGTATTTATCTATTCCAAGTCTCAAAGACTCTGGTGCCAGATATTGAGTCCAAGCCTTGCATGCATCTGTTACACGGCTTGAGTCTTTGGAAATGATTTAGGCCTTGGTGGAATGTGGCTGATCTGTGTTCTAATTTCTAGGAATAGTTATAATATCTGAAGTCATAGCTAAAGAGGAAAAAACCACAAATGAAGTAGAGACACAGTAACAAGCAAATCATCTGCTCAGTATTCCCATCTTCATGATCTAAACCTTAGAAAATATGATAGTGAATTGGTATCACGTTAATACATAGTGAAAGGCATTCTGACCCCAGGCTTTTCTTTGTTTTATAAATGTTCTATATAATTGGACAGTAAGGTCAATGTAAAACAAGTAGTAAAATTAACTATATTGAACTTGTTCTCTGACATACTATGGAATATTTTTATGTAGATAGTTAATAAGTGAGAACATTTAAAGCTATATCCACAGATGAGGCAAAAATGCTGTTGGGGAAACAATACAGGACTATCAGGACTATTTTAGAAGCTGGTATAAGAATGTTTATAATGCGAATGCTTCACTCCTTCTTTAAAAGGGGAATAAGAATACCCTTGGCAGGGAATAGGGAGGCAAAGTTTAGAACGGAGGCAGAAGGAACACCCATTCAGAGCCTGCCCCACATGTGGCCCATACTTATACAGCCACCAAACTAGATAAGGTGGATGAAGCAATTAAGTGCAGGCCGACAGGAACCGGATGTAGATCTCTCCTGAGAGACACAGCCAGAATACAGCAAATACATAGGCGAATGCCATCATTAAACCACTGAACTGAGAATAGGACTCCCGTTGAAGGAATCAAAGAAAGGACTGGAAGAGCTTGAAGGGGCTTGAGACCCCATATGAATAATAATGCCAAGCAACCAGAGCTTCCAGGGACTAAGCCACTACCTAAAGACTATACATGGACTGACTCTGGGCTCCAACCTCATAGGTAGCAATGAATATCCTAGTAAGAGCACCAGTGGAAGGGGAAGCCCTTGGTCCTGCCAAGACTGAACCTCCAGTGAACTAGACTGTTGGGGGGAAGGGCGGTAATGGGGGGAGGATGGGGAGGGGAACACCCATAATGAAGGGGAGGGAGAGGGGTTGGGGAATGTTGGCCTGGAAACCAGGAAAGGGAATAACAATCGAAATGTAAATAAGAAATACCCAAGTTAATAAAGATGAAAAAAAAGAATATTTATAATGAATATGAATTTATTTTTACTATAAATGACTAGATCATTATTTTCTTCTCTATTTATTTACCCCTGCTTAG
Seq C2 exon
GCTGGAATACAAATATTCTAAATTAGTAATGACGACTAACTCCAAAGAGTGTGAACTCCCAGCTGCAGACAGCTGTGCTATCATGGAAGGAGAAGATAATGAAGAGGATGTTGTATATTCCAACAAGCAGTCACTACTAGGGAAGCTTAAGTCTTTGGCCACAAAGGTGAGAGCTGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005818:ENSRNOT00000007723:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TGGAATGAGCCTAAGTGGTGC
R:
GTCAGCTCTCACCTTTGTGGC
Band lengths:
342-1821
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]