RnoINT0157589 @ rn6
Intron Retention
Gene
ENSRNOG00000005868 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:RGD Symbol;Acc:1565122]
Coordinates
chr3:52308614-52309684:-
Coord C1 exon
chr3:52309574-52309684
Coord A exon
chr3:52308696-52309573
Coord C2 exon
chr3:52308614-52308695
Length
878 bp
Sequences
Splice sites
5' ss Seq
ATGGTCAGT
5' ss Score
6.57
3' ss Seq
TGTGGTGCTTATCTCTGCAGCTG
3' ss Score
9.76
Exon sequences
Seq C1 exon
ATAATGTTGGAACTGGCCCAGTTATACCTGGCCCAAGAAGACCTTGATGCCTCCCTCCGGCACTGTGCACTGCTTCTCCAGAGGGACCAGGACAACGAACCGGCCACCATG
Seq A exon
GTCAGTCGAGTTCTCTGCTGCGCGTGCAGTTGCGCTTTACTCTCTGTGAGGAATGTTCACATTTTACCCGTAGTATGGTTACTGGGTGATGAGGTCTTGTTCTTACGCGCTTTTGGAAGAATAGCATATTTCTAACATGAGCACAGCAGAACTTCTGGAGTCACAGGGAACAACAAAGCCTCATTGTGTCACTGTGTCACTCTCAATGGCCTGTCTCACAGTTTCAGTTTTTTCCTACATGGATTGAAGCTTCTTTCAGCTTTTAAATATCTTGCATGGGTGACTGCACATGGCTCATTCAAGATCACCATTACAACTAAGTAGACTGTAAGGTGTCTTGCTTTAAAACCCATGGAAAATCTCCACAGGTCTTGCATGGTTTCCATTTAAGATACGTAGGACTTAAGCTTGTTTCCAAGCCTTTCGTGGTCACTCTAGTACAGTGAGGCATGTCGTTACAGTAGCACGATGGAATAGTAAGTAGCCTCACATGCTTCTAAAGATTGTGTTCGTCATTTGTATGTGTGTATGTCAGTGCAGGGTCCTAGGAGATCAGAGGCGTGGGGGCTCCCCAGAGCTGGAGTTACAAGTGGTTGTGAGCTGCCCCTAGTGGGTGCTGGGAATTGAACTTGGGTCCTCTGCAAGAGCAGTACACTCTTGTAAACACTGAGCCATGGCTGCAGGCCATCATAATTGTTTTTTATGCCCCCACTTGAAACTTTTGGGAGGCCAAAAGCTATGAGCAGAGCGTCCGAATTGCATGCTTGATTATTTTTTATCATTTCTGTCCCTCCTGTTTTTCCATAAATATTAGTATAGTGCTAAATCTTCATGAACATAATGTGCTTGGTGACAATGTGTGGTGCTTATCTCTGCAG
Seq C2 exon
CTGATGGCCGACCTCATGTTCAGAAAACAGGACTATGAGCAAGCAGTGTTCCACTTGCAGCAGCTTTTAGAACGAAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005868:ENSRNOT00000007832:32
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=0.000
Domain overlap (PFAM):
C1:
PF145591=TPR_19=FE(52.9=100)
A:
NA
C2:
PF145591=TPR_19=PD(5.9=14.3)
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:
ATAATGTTGGAACTGGCCCAG
R:
GTTTTCGTTCTAAAAGCTGCTGCA
Band lengths:
190-1068
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]