RnoINT0126271 @ rn6
Intron Retention
Gene
ENSRNOG00000001011 | Rflna
Description
refilin A [Source:RGD Symbol;Acc:1588777]
Coordinates
chr12:37038733-37040801:-
Coord C1 exon
chr12:37040692-37040801
Coord A exon
chr12:37039937-37040691
Coord C2 exon
chr12:37038733-37039936
Length
755 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
TTTGTTACTGTCCTCCCCAGCTG
3' ss Score
8.72
Exon sequences
Seq C1 exon
GCCACTTCCCTCTTCCCAAATCCCCCAGCCCTGGAGATGAGGTCCCGGCTGCTGCCTGTGTTCTTTGGGGAGAGCATCGAGGTGGACCCAGAACCCGCACACGAAATCCG
Seq A exon
GTAAGGAGGCCTTGAGCAAGGTGGGCGGGGCTTAGCTGGGAGCATCCTGCAGAGCTGGGTGCAGGATGTGGGACGGGGCCCACCTAGCTGGCGGGAGGCGGGGCCGTGTCCAGACAGCCAGATTGGCCCTCAACAACTCTCACCCCCTCCCTGGTGCTGGTCCTCTGGAGGGTACCCACTGCTTGGTATCAAACCAGAAACCATGCAAGCGGCACTTATGTCACTGATTGGTCCCTCTGAGGGGGGATCACCTACCAGGAGGGGCCGTGGGGACTTTTAGTAGGTTTTCTGATGGTCAGACTATTGGGAGTACTTACTCTGCTCTCTCACACGGCCTTTGACATTGCTGGCCCCTGAATACTGATACGCTCCAACGCCACACATATTCCTCTATGGTCACAATCCAAAGCCACCACCCTAATAAAACTATCGTCCCGATCCCCCCCCCCCCCCCGGGGCCTAGCAAGCGCTCTACCACTGAGCTAAATCCCCGGAGCTGAGGACTGAACCCAGGACCTAGCAAGTGCTCTACCACTAAGCTAAATCCCCAACCCCCGTCCTAATTCTTTTATGTATTTTTCCACTACTTTAGGGTCCAGCTGTCCAGGTTGCTTGTCACTCTTTAGTCTCCCAGCTGGGATTCTGACCCATCACCTTTGACCCCTTCAGTCAAGGTCAAGGGGGGAGGGGTTCTGTGTAAGGCTAGCCACTGAGGGCGGCAGGCAACTCACCCCCTTTGTTACTGTCCTCCCCAG
Seq C2 exon
CTGCAACTCCGAGGTCACCTACGCCTCAGAGAGATACTTCCGCGACAAGATCTTCTACGCTCCGGTGCCCACGGTCACAGCCTACAGCGAGACCATAGTAGCGGCGCCCAACTGTACTTGGAGGAGCTACCGCAGTCAGCTGACCCTGGAGCCTCGCCCTCGGGCCCTGCGCTTCGGAAGCACCGCCATCATCTTCCCCAAACTGGCCCGAAGCTCCTTCCGCACCACGCTGCACTGTAGCCTAGGCCAGCCGCGGCACTGGTACTCCTCCAGCCTGCAGCTGCGACGGTGTGGGGATCCCGCACCCAGTTCTGGCTGCCCCGATGTACTCTGAGGCGCCCAGTGGCAGAGGAGGAGCCGAGTGTGGGAGGGAGTCAGGAAAGAGGGTCAGGCGACCCCACAGGTTAGGCTGGCTGTGCCCGAGCCTAGAGGATTCTGTGAATGAATCTTTCATTAGTCTTTACAGACTTGATGGCCTTAGGGGCAGGGCCCAGCATGTCCTGGTGTGCCCTCGAGGCAAAGACAGCCCTATGTACCACAGGACACAGGGCACTCAGCCATGGTCTGGTTCCCAGCGTCATTCTTGGAGAGGCTTGTTTCAAAATAGGCCACTCAGAAGTGCTCTCCCCGGCTGAGAACTGCAGGTATGGAGGCTGAACTAGCTTACCTTGAACGGAGATGGGGCTACCCAGAACACATCCGTTGTCTGCTGTGCAGGGCACGTGTCCCCACAAGACACATTCCAGACTAGCTTAGAACTCTTGAGCCTCAAAGCTTTCGGGCAGGTGCCCAGGGAGGCTTCAAAGCTAATGACGGGACATTGCCAATAACTGCCTATGGCTGACTCTGGACTTGAGCCTACGGCAGGGCTCAGAACCCCAAGAGAAACTGCCTGCTTTTTCTTGGCTTCCTGTTCTTGCCTAGGATGGATCCTACAGCTATACCAGTTTTCGGCTCTTGCCCACAACCTGGTCCTGTCCCTGGTTAAAATGAGTCTCCGAGTCCACTTAGAGATGGAGACGTCCCTTTGCCTCAACTGGAAACCTGCCTACTGCCTCTGTGGTGGCCCAGAGGGAAGGGACACACTTTGTGGGGCAAATGGACTGATTTCTATCAATCTAGTAGCTTACCCCAAGTGCCCTCCTGGTTGAAGAACAGCTTAAGAAATTAGTGAATCATCCTAATAAACTGTACGCACACAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001011:ENSRNOT00000001337:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.216 A=NA C2=0.018
Domain overlap (PFAM):
C1:
PF150681=FAM101=FE(18.8=100)
A:
NA
C2:
PF150681=FAM101=PD(51.0=87.5)
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:
TTCCCTCTTCCCAAATCCCCC
R:
CTAGGCTACAGTGCAGCGTG
Band lengths:
350-1105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]