RnoINT0157580 @ rn6
Intron Retention
Gene
ENSRNOG00000005868 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:RGD Symbol;Acc:1565122]
Coordinates
chr3:52329009-52330865:-
Coord C1 exon
chr3:52330708-52330865
Coord A exon
chr3:52329231-52330707
Coord C2 exon
chr3:52329009-52329230
Length
1477 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
GCTGCTAATTTGTTCGTCAGGTG
3' ss Score
5.68
Exon sequences
Seq C1 exon
GTGACACCGAGGCAGCCTACAACAACCTGCAGCACTGCCTGGAGCACAGCCCCTCTTACGCAGAGGCTCACCTCCTGATGGCGCAGGTGTACCTATCCCAAGACAAAGTCCAGCTGTGTTCTCAGTCGCTTGAACTTTGTCTGAGCTACAATTTCAAT
Seq A exon
GTGAGTACTGCAGATTAGGATTCAGACATACCCCTGACCTTGCTTTTCTTGTAGAACAGCAGTTGTTATAATGAGAATTGAATGAAGCAATTGTATATACTTATACAATAATATTAGACCATGGAGAAATATACCAAATATTTTTATGGATAAGGTTAGTAAATGGTATTGCTCATTTTCTGTTGAATCTTCCTTTCCTTTTACTTCTTTCCTTCTTTCCTTCTTTCTGTTCTATTTTTTTTTTAGAGGCAGCGTATTTCTTTCTGGTCAGGCTGGGCCTTTTTTGTATTTTGTAGACCAGTCTGTCAAGAAATTTAGGTCAATCTGCCTGCCTCTGCCTTCCAAATATTAGGAAAACTGTATGAGCTCCACAACCTGCTAGAATTATTTTCCCATAGTCTCTTTTTAAAATTACTGTCAAAGAATACACAGTAATTTTGGAAACGAACATTATGTAGTTTGAAGCTTTAAAAGCACTCCTTAGTATCCAGGAAAGTTCTCGTACTTCCTGTGAATGTGAGTGCTTTCAGGACTACTTCAGGCTACAGAAGGAAGCCTCAAGCCAGTGACTCACCCAAGGCCTCATGGGAGAACCATCAAATGAGCTAGAGAAGCCAAGTTCTAAGAGTCTACATTTATCCGTGCTTTTTCTTAGAATAGTAGGTAGATCTCTAGATTGGAGGGACACTGGGTTCTCTGCCCATGCCCTGTGCCTCAGTCTGTGGGGAAGAAGAAAGGAGTGAGCATTCTCTAGTCCTGCAGGTGCATAGCCCCTAACACACGAAGGCCTGGGACTCCTTCGTTCTGGGTGGCTTCCACCCCACCCCACTGAGGGTGTCTCCTCTGGCTTGTCTTCTTTACTCAGTCTAGGTTCTTCCGTCCTCCTATGTCCTGTTTACAGCTAAGATACAGACAGCTAAGATACAGATACAGCTAAGATACAGATTCTGTGTTTTGGGGTAGGATGTAAAGGAAAGGCCATGAAAACACTTTGAAATTTTTAGTATTGAAAGTTAAAACAGTAAAAATGAAAACTTATTTTTAGAAATCTAAGAGGAGTCTAAAATAAAGACATTCCTTTACTGAAAAGTCTAATTTTAGGATGTTTTGGTAGCCTGTAAGACAAAAAAAAAGTTATTCTACCTATTTGACATTGAAGAAAGAGGAGGCCGGGTTCACAGTTTCCCTAAACACTAGAGTTCATAGGCTTCCAACTGTGTGCTTCATTGAGATGCATTTGAGTATGTGAGCCTGCTTAATTTCACTATGCGAGGTTTTGTTTTATTATTTGCAAGTCCTTCTAATGAAATATTAATTTGAAATTATGATTAGGCAGTGAAAAAAATAAGGTCAGAAACATGCTTTGAGGATGGGGTCACACATGAGCTGTACTCCAGAACTTCATATCCCACTTGATTGGTCAGACGTTCTGGTTTCCACTGTGTGCGCTCCAAACCGCTGCTAATTTGTTCGTCAG
Seq C2 exon
GTGAGAGACTACCCACTGTACCACCTAATCAAAGCACAGTCACAGAAGAAAATGGGCGAGGTAGCAGAAGCAATTAAAACTCTGCACATGGCAATGAATCTACCAGGAATGAGGAGAAGTAGAGCTTCCTCGAAATCCAAGCACAGAAGTGAAGTGGATGGGAGCCATCGCTTATCCATCTTTCTTGAGTTGGTGGAGGTTCACCGCTTAAATGGAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005868:ENSRNOT00000007832:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.203
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PD(75.8=94.3)
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:
CCTACAACAACCTGCAGCACT
R:
CCATTTAAGCGGTGAACCTCCA
Band lengths:
358-1835
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]