RnoINT0157584 @ rn6
Intron Retention
Gene
ENSRNOG00000005868 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:RGD Symbol;Acc:1565122]
Coordinates
chr3:52323821-52324796:-
Coord C1 exon
chr3:52324686-52324796
Coord A exon
chr3:52323960-52324685
Coord C2 exon
chr3:52323821-52323959
Length
726 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
CTGACATGGACTTTGTTTAGGCA
3' ss Score
4.72
Exon sequences
Seq C1 exon
CCCGAGGAAGCCATAGTGGCCTATGAGCAAGCATTAAATCAGAACCCAAAAGATGGAACACTGGCGAGAAAAATTGGGAAAGCACTTGTCAAAACTCACAACTACTCAAAG
Seq A exon
GTAAGTGCTTCATAGTGTGAGGTACACCTATGGGGTCATGTGATCGAGACCTACTCTAGAGAAGTCTTCAGCAGACACTTTCTTTAGTGATTTTAAGCTCCACATTTGGGTGAGCAAACTGGTATTTGTGTCATGTCAGATGTTCCTAGTGACCTGCTTTCTCCAGTGCTGCACTCCATGGAGATGGTTTTGATGCTACCATTCCTTTAAGTTTCTTAAATCCTAGACTTTGCAACCAGATAATGGCCATAAAGTCAATCATATCGCATTGTATAATACACAGTATAATGTAGTCTAGTCATTGTCTTTTCTGCTGTACCAGATGGGTCAAGCTAAATGCGTCAAGGCGGTTGTTCTGCTGTTGTTTCTAGTAGAAATAAAGGAGCTTCCTTGACTGTGTATTCTTTTGCCATTCATGGTCATTGTTAAGTTTAAGTGCACTAGGAAAGCAGATACGTTTGAGAAAGCTTGCTTACCTTAGAATAATCTCTGGAGAAATATTTTTTGCCAAGTCCTGTTCATTATCCCTTTATTGTTTAAGAAAAGATGCTAGTTGCTATGTGGTCTCTAATTCCCTAAGAAAAGCGACATACTTGACTGACAGTAGGAATAGGATACATGCCTAAAATGCTTTATATATGGTTTCTAGTGATAGATATGTCTCATGCCTTGGCTGTGTGAAGTCTCTGTGGTTTTTCTGCCCTGACTGACATGGACTTTGTTTAG
Seq C2 exon
GCAATCACCTATTATGAGGCTGCGCTGAAAAGTGGACAGCAGAATTGCCTGTGCTATGACCTGGCTGAGCTCCTCCTGAGACTAAAGTTGTATGAGAAAGCAGAGAAAGTTCTTCAGCATTCTCTAGCTCATGATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005868:ENSRNOT00000007832:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=FE(55.4=100)
A:
NA
C2:
PF134141=TPR_11=PD(15.4=21.3),PF134241=TPR_12=PU(44.2=72.3)
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:
CCCGAGGAAGCCATAGTGG
R:
GGATCATGAGCTAGAGAATGCTGA
Band lengths:
248-974
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]