RnoINT0000697 @ rn6
Intron Retention
Gene
ENSRNOG00000054843 | AABR07005593.1
Description
NA
Coordinates
chr1:189695488-189697281:-
Coord C1 exon
chr1:189697114-189697281
Coord A exon
chr1:189695631-189697113
Coord C2 exon
chr1:189695488-189695630
Length
1483 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TTCTCTTATCTGTACTAAAGGAA
3' ss Score
5.72
Exon sequences
Seq C1 exon
TCATACATTGAGTACCTCAGGACCCTCCCCATCACAGCACACCCTGGAGTATTTGGTCTCCATGAGAATGCTGACATCACCAAGGACAACCAGGAAACCAACCAGCTCTTCCAAGGAGTGCTGTTGACTCTGCCAAGACAGTCTGGAGGGAGTGGGAAGTCTCCTCAG
Seq A exon
GTAACCAGGCTTCCCTCTGGTGGGCATTCAGGACTACAGGTGAAGGCAGGAACAAAGGACCCTGGGATCTATCTCTGGGCTGGGTGCTTCGGTCCTACTGCCAGGTCCTTAAATACAGAACACAAAGGAAACAGCTCCCACAATGCTGGTTATTTCTATAAAAATCTTCATGGATTTTCCTATATTACATACCACTTATACTCTATATCCATGCTTTAAAACTAAATGCATTTTGGCTCAGAAATTTTTAAAAATCGCAACTGAAAACTATTAGCAGAGACTTAATATAATTTCCATTAAGTTGTGGTTGGGACAGAAGGAAGAAAGACGTTCTTCTGGGGTGATATTGCTAGCCAAAGTCCTAGAGCTGAGGCTTTGGTGGCCTCTTGTTAAAGGGAGAGATGGATCCTTGAGTGTTAGAGAGCTGTCAAATTAGCACCAATCTGAGACCTTCTGTTTGGAAAGAATGGAAAGAGAAGGATATCAAGACTTGAAAAGGTTAATTCTCTCACCATGTAATTCAACATTGTTTACAACCACAGTTGGGCTGGCATACTTCTAGCAGTCCCAGTGCATACTGTGTGAAACACTATCCTATTCGGAGTATAAGTGACAAAAACAAAATCAAAATCAAAAAAACCTTATGAGAGGTGACATGATCTGCCAGCTTCATGGCCTTCATAAAATCAATGGGAAAGCCAGACTCAGAACTGTGTCTCCTGTCTGAGACACACACACACACACACACACACTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTTCACCCCTCTCCTTCTCTCTCTTTTTCCCCTTGCTCCCTTGCTCCCTCCTCCCCCCTTCTCCCTCCCATCCTGTCTTCACCTTCTCCTTCTGAGCTGCCTCCCATTCAACACTTGTCAGTTTCTTGCTGACTGTGTTCCTTCACTTTAAGTGTTCTGGTTAGTGTGTCCTAATATAGGGAAGGAACTGCTATCCAGCCAACTAACCCCAGCAGGGTAGGGGAGCTATCAGGCTCTGCCTCTTGGTCCACTGTCTCATTCCCTACTTGGCTAATTCCAGTGCCACAGGCTTGTCTTGCTCAATGCTAGAGTTAGACCTACTACCTTCCCAAGTGTCACTGGCATTGAGAAAGACCTTCCAACTTTGAGAGTTGTGGGGATTCTCTTTGGCAGTGACCTTGAAGATAGAGCCAGTGTTCAATGCTGTCCTGAGGCTACCGACTGATTAAGGAATAGCCTGTCTGGCCACAGCTGCAAGGACAGGGCTGTTGTTGCTCATTATTTTGACATTTTGGGAAATGTCCTCTCCAAGGTTGGTGAGCTGATAATTGCCATCCTTCCCTCTAAGGAGCAGAACTGGCTTCTGTGGCAGAGTTCCCAGGAAGGGCCAATGCTTACATCAAGTGTGTCCAAATAAAGCCTGCTGGTGTTACTTCTCATTCCCTTTCTCTTATCTGTACTAAAG
Seq C2 exon
GAAGTGGTTGAGGAGCTGGCCCAGGATATACTCTCCAAGCTTCCCAAAGACTTTAACCTGGAAGAGGTCATGAAGTTGTACCCTGTGGTCTATGAGGAGTCTATGAATACCGTCCTAAGGCAGGAGCTCATCAGATTCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054843:ENSRNOT00000080401:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATACATTGAGTACCTCAGGACCC
R:
TGTTGAATCTGATGAGCTCCTGC
Band lengths:
310-1793
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]