RnoINT0154869 @ rn6
Intron Retention
Gene
ENSRNOG00000054118 | Tpgs2
Description
tubulin polyglutamylase complex subunit 2 [Source:RGD Symbol;Acc:1310571]
Coordinates
chr18:17340495-17342099:-
Coord C1 exon
chr18:17341939-17342099
Coord A exon
chr18:17340729-17341938
Coord C2 exon
chr18:17340495-17340728
Length
1210 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CTCCCATTTGTGCCTCACAGCAA
3' ss Score
7.81
Exon sequences
Seq C1 exon
GATTAGCTCATGACACTGAGATATGGTTCCTGGACAGAGCGTTATACTGGCATTTTCTCACAGACACCTTTACTGCCTATTACCGCCTGCTCATCACCCACCTGGGCCTGCCCCAGTGGCAATATGCCTTTACCAGCTATGGCATTAGCCCACAGGCCAAG
Seq A exon
GTAAGGAAAGAACGCCACCATCTCAGAATCTGATGTGTACCTAGATCATTCTGTGGAAATGGCTACCTTCCAAATTCACTCTATGATCAAGGGTGAAAACAGTATTTTCAGTAAGTGATTCATGTTGGCTGATAGCTTCACATGATTCAGATCTAATTAAATAATCAGGATCAACTAGAGTGTTATTTTTAATTAAAATGTTACTGGGGACTTGAGCCTAGTCAGCCGTTTTTGGATTGACAGGACAATACACACACTTAGAAAGATTGACAGGTCTCTGGTTTTCCTGTGCTCCAGGTATGCACCCCACTGTCAGGCATTGGTAGCATGTTTTCTTTGTATATTTTTGCTAACACAAATGTAGCAATTCTGCACTTTTATGTTTTTCACCCAGTGCTCCATTGTGGAGTTCTTTCCATATCAGTACCCATAGATCTGTCTTCTGTATGTTGCAGATCTGGCCATCATTTCACAGATGCCAGGTTTATACAACCTGCCTTGAAAACACCAAGCAGTGGCTAGAACTTCTGACTGGAATGAACTGGCCTGGTTTAAAGAAAAATCATAGTGATTTCTTATAGCACTTAATCAGCAAAAAATTTCACTGTATCTTTACCAGATGGCCTCATTGTTCTCACGGTTTTTATAAGAGCAGCTTCCATATACTGTAGTGTGAACTGGTTTTGATCAAACAATGGCAGCTGCAGGTATAGAGCACACAGCTTCCTATTAGGGGGCGGGGAGGGGAGTACCGCACTGACCTCGGCTGCAGCACCTATCGGGACAGTGCTGTTGGAACACCCATGATGGGCACCATCTGCTTTGATGGCAAACAGGACAGTGTCCTTGGTGGGCTCAGTAGTCCTACGGTGCCAACAAGCATACTTGTCTTCTTAGTTCTCACAGTACATTTATTTTGGAGGCCTTAAATAGTACTATATGTGCTTGGCCAAGGGTTGATGGTGTCTCTCACCACTTAACTGTTCGAGAGCTCATAGATTTTTTCAAGGCAGTTTTTCATAAAAATGTGTATTAAATGAATATTACATCACGGGAATGTACCAGAAATGTTTTAGATTTCATAGCTTTCTCAATTTTGAAATAATCACATGTATTTTACCAGTTGACACTGAAAAAAAATGTGGTTAGTGATGGTCAATTTGTAATGTCTGTCCTGTGTCACCTGCTCTCTCCCATTTGTGCCTCACAG
Seq C2 exon
CAATGGTTCAGTATGTACAAACCCATCACCTACAACACGAGCCTGCTCACAGAAGAGCCCGACACCTTTGTGAACAAGCTGGACCCCAGCAAAGTGTTCAAGAGCAAGAACAAGATTTTAATCCCAAAAAAGAAAGGGCCTGTGCAGCCTGTCAGTGGCCAGAAAGGGCCCGGGCCCTTAGCTCCGCCTACCTCTAAACCTTCTGCAGGCTGTGGAAACCCTGTCCGAAAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054118:ENSRNOT00000082963:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.403
Domain overlap (PFAM):
C1:
PF093465=SMI1_KNR4=PD(18.5=51.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTTCCTGGACAGAGCGTTA
R:
GGTTTCCACAGCCTGCAGAAG
Band lengths:
358-1568
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]