RnoINT0154868 @ rn6
Intron Retention
Gene
ENSRNOG00000054118 | Tpgs2
Description
tubulin polyglutamylase complex subunit 2 [Source:RGD Symbol;Acc:1310571]
Coordinates
chr18:17341939-17343857:-
Coord C1 exon
chr18:17343741-17343857
Coord A exon
chr18:17342100-17343740
Coord C2 exon
chr18:17341939-17342099
Length
1641 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAG
5' ss Score
5.75
3' ss Seq
AACTTCTTGTGCTATTTTAGGAT
3' ss Score
9.25
Exon sequences
Seq C1 exon
GCAATGAAGACCACCAGCTCGAGAAGCCTCACTTTGACTGTCGCAGTGCGATATTTGAGCTGGATTCATGCGGTGGGAATGGGAAAGTTTGCCTCGTCTACAAAAATGGGAAACCTG
Seq A exon
GTAAAGTTCATTTCCAAAACCTGATCCTACAGGATAGAAGGGCTCTCCCGAGCTTGCCTCTCAGCCATCATTGCACAGAAGCTCCCTGAGATGCCTCCACGCGTCTTCTTTGTGCTAAGACTCAGCCCCTTTGGTCCTCTCTGAGCATCTCCCACTGGGCCAGTTTCTACGTTCCATCTCCTCGTATGAGTCACGCTTAAGAGAACTCATCACTCTGTTCAAGGGTTGTACATTAAATAAGCATTTAGGAGATATTTTGCCTTTTATACTTTTGTATATAGGCCAGTTAAGAGCAACGGAAACCTGAATTACTAGACCTCAAGACTCTACATGTGAAGTGACGCTTCCCAAGAGATGTAGGGCTAATGGTAGTTACTGAGATACTGTGTACACCTAAACAAACTACCACCTACTCCATTATAGCAGTTCAGGCCTAGGGACTGAATGTACAGTTAAGAGTTAGAGTCTAAGTAAGAGTTAAGCAATCTAGAGCTAAGTAAGAGTCAAGCGCTCTTCTTACCTCTTTCTGATGGTGTGAAAAGGCATAAACATTAGAAATTACCTCTGGAGAGGAGAGATTGTTCCTGGGTTGAGGTGTTCTAGCTTAGACTTAGAGCTTTCTTATGAACAATGATTGGAATTACATATGAGGAAAGGGTGAAAGGGGCAACCAAGCAGACAAAGGGCTTAAAAGCCACATTCTAGACAGGTCAACTGGTTGGTGGTAATGACAGTTTCACTTTAATGACCCTAAGGGATGAAAAGGAGATGGAGTCTGAGTGCCAGCCACTTCCTCTCAGGCAGAGCTGGGGACGCCAAGCAGAGTCTGAACTGCTGTAGAAGACTAAGAAATTGTTTAAGGCTGTTTAATACAATGGCAGGATACAAATGAAAATGGGCTGGTAGTTTTGGAAAAGGAAGAAAATGGGGGAAGTGTTAGGGCTATCTAGAAAACTGATAAGCCAGAATAGGCTACAGGTCGTTTCCAAACGGGTGTAGATAGGAACTGGCATGATAGCCTGTCATACAAGCAGGATTGCAGGGGTGAGGAGGTATGACCAGTGGTTCTCAGCCTGTGGGTTGTATCCCCTAAGACCATCATAAAACACAAATATTTATATTACTATTCATAATAGTAGCAAAATTACAGTTATGAAGTAGCAACAAAAATAATTTTATGGTTGGAGGTCACTACAACATGAGACACTGTAATAAGGAGTTGTGGATTAGGAGGGTTGAGAAGGTTGGTATAGACTCTTTTATGCTGTTCTTTGGTTTGGTTTGGTTTTTCATAGCACTTTTGATTAAGAGACCTCTTTTTAAAAGACTGATCCAGTCAAGGTTTCTTTGCATCAAAAAAGACGACGGAGTGCTCAGTCCACAAGCATCTGCTAAGGTGGCCTTAATGAACTGCCACGTAGCCAAAGCAAGCAGATAGATCCATGGGGCAATCAATCAGAAACCTATGAGTATCAAATAAACCGGTAAAAGCAGCCACAAGAGCAGGACTAGAAGCCTAAAAGGGGGGAAAGAGGGAAGTTTTATGTTTACTATGAATTTTCTCCTAACTATCAATGTATATTGCCATTTATTTAAAGGGAATCTGTATTAAGCTGTCTCTAACTTCTTGTGCTATTTTAG
Seq C2 exon
GATTAGCTCATGACACTGAGATATGGTTCCTGGACAGAGCGTTATACTGGCATTTTCTCACAGACACCTTTACTGCCTATTACCGCCTGCTCATCACCCACCTGGGCCTGCCCCAGTGGCAATATGCCTTTACCAGCTATGGCATTAGCCCACAGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054118:ENSRNOT00000082963:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.175 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF093465=SMI1_KNR4=FE(25.8=100)
A:
NA
C2:
PF093465=SMI1_KNR4=PD(18.5=51.9)
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:
GCAATGAAGACCACCAGCTCG
R:
ATGCCATAGCTGGTAAAGGCA
Band lengths:
262-1903
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]