RnoINT0158917 @ rn6
Intron Retention
Gene
ENSRNOG00000012960 | Uap1l1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1 like 1 [Source:RGD Symbol;Acc:1310630]
Coordinates
chr3:2579258-2580877:-
Coord C1 exon
chr3:2580811-2580877
Coord A exon
chr3:2580452-2580810
Coord C2 exon
chr3:2579258-2580451
Length
359 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTGTAACCCCTTGCTTATAGGGG
3' ss Score
5.17
Exon sequences
Seq C1 exon
CCTGCTCCCAAATGGAGACCCTCCAGCCATCTGTGAGATATCGCCCTTGGTGTCTTACTCTGGAGAG
Seq A exon
GTGAGCACGAGTTCCCTTCCAGGAGTTCATGAACTCTGGTTTGTGTAAAAATGGGAGAAGCCGGGACTAGGGTAGAAGGTTACAGCCCCAGTTCAGTTGGCCAATGAAGTGTGAATTTTTGGGATGTGGTGGGCTGAGGGGTCTGGAGGCCTTTGCCAATCTTAGAGGGGTTGGGGTATAGGAAGGAATCAAGGCTGAGACCAAGATTTTGGGGAGTCTTCCTGAGGGAGAGACACTAGCCCCGGAGTCCTGTGCTGTCCCTCCCTGACAGGGCAACACTGGAGTGATGTTTCAGGGTGGCTGGAGCGGGTATGCGCAGGCAAAGTGGACACTTAGCCGCTGTAACCCCTTGCTTATAG
Seq C2 exon
GGGTTGGAAACGTACCTGCAAGGCCGAAAACTCCAGTCTCCATTCATTCTGGATGAGGACCAAGCCAGGCTGCTGCAGTCACAGGAGTGCTAACCGCTTGCTCCCAGGCTCTGGCCATGGGGTTCTGTAGGGTGGCGATGCAACTCTGGGTGAGGTTCCAAGTGGAAATGCTAGCCTGCAGACATTGTCTTGACACTGAGACAAGTGTGCTGGTTGATTTCGAAAGGCTGGGACTTCTTGGGTCCCCCCATGGATTCTGGTTGTCTCTCTGTGTGTGGGTTTTGTTTGTTTTGTTTTTGTCTCCTTGCTGGCTCTAGGGCTTGGCTGAGAGGCAGGGGGTTAAGAACGTTGGGAAACAGGGCTAGAAGAGGTTCAGGGTAGAGGGAGGGAAGTGTTATCTAGGAAGGCAGCACTGGAGATGCCCTTCTAGCATCTCCCCCCGACCCCTGCTACCCAGCACACAGGCCAACACACAGGCTCAGCAGACAGTGAGCTGTGCCATAGCGGGTGTAGTAAAAAGGCCTACCCTAGATAGCAGAACCATAACTGGAGGAAGGCTGAGCATGTCGTACCACGTGCCACACAGGACCAATAGAAGAAGCCAGATGCCAATGGTTAGGACCAGGTTGGAGGACTCTGACCTGCACACCTGAGATGAAAGATGAAATCTCCCTAGACCTCTTCACACCCCGAGTCTCCCAGTCACACTTACCAGTGCGCCTGGCTGCTGTGTCCTAAGTATTTTCCTCCCAGAACGAGAGATCGCACTGGTTGCCTTCTGCAACTGATTTTGACCCAGACAGGAGCACAGCTCATCTTGGTAAGTTGCTTTTCCCAGAGCTTAGAGCCAAAGCTCTAGGATGGAGATGTAGCTTCTCTTTAAAGTGGCACTTGGCTCTGCCGCCTGGCCTTGTTCTGTCACTGGCTGGACCTCCATGGACTCACAGCTGTTCTCCCATGCAGGAAATGATGACACTGGCCCTACCCTGTAAAGTAACAGCAGTCAGGACAGACAGCCTCTCTGCAGCCACCTACCTACCCCAGACATGTGGGCTCCTGCTCACTTCCTTTAGCTTTCCCACAGGAGGTCAGAGGGAGGAGTGAATTCATTCACCTTTGGTGTGGAGCAGCGGACACAGATCTGGGGAAGATGGGAGGACCGGGCCTGCGGCTGCAATGGTTAAACCAGCTTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012960:ENSRNOT00000017373:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.033
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:
TCGCCCTTGGTGTCTTACTCT
R:
CCTAGAGCCAGCAAGGAGACA
Band lengths:
345-704
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]