DreINT0169079 @ danRer10
Intron Retention
Gene
ENSDARG00000012368 | ttc21b
Description
tetratricopeptide repeat domain 21B [Source:ZFIN;Acc:ZDB-GENE-031010-34]
Coordinates
chr9:50137392-50139224:-
Coord C1 exon
chr9:50139000-50139224
Coord A exon
chr9:50137631-50138999
Coord C2 exon
chr9:50137392-50137630
Length
1369 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
ATGTGTTTTTTTACTTCCAGCAT
3' ss Score
8.74
Exon sequences
Seq C1 exon
ATTCGTGAGCATCCTCTGTATCACCTGATTAAGGCTCAGGCTCAGAGGAAGATGGGGCAGCTTCAGGAGGCCATTCAGACGCTGCAGATGGCCATGAGTCTGTGTGCTGTCAAGAGGACGGGCTCCTCAGCCAAACGACAGAGCAAAAGAGTTGAGCTCAGCTCTGCTGACTGCGTGTCTGTGTTCCTGGAGCTGGCCGAGGCTCTGTGGCTCAATGGAGAACAG
Seq A exon
GTTAGTGAGAATTCTGATCATCTTAGAAGTTATAACAAATATCAGAGAAACGGCTTCTCGAACCATTTTTTAATTAATTGATTAGGGTGGGACAGTTTACAAAATTGTTGGTTTGGTTTGTATCTTGTGTTCTGTGGAGTGATTCGGTTTACATGGTAAAAGATGTAGATGTAGTAGAGTAGGCATTTCATTCAGAAAGATTAGGAAAGGGTTTGAGAGAGTTATTACAACTGAACACACTCCTCCTGCTCAGCATTTCGGTTTGTTATCAAACTGACAGTTGGATGGGCGTTGTTAAGTATGTTAGACATGCCTAACCGTACGTTCACACCGAAAGCGGCAAAAGCGTCAAAGTAGCCGGAAGTCATTCATTTTCAATGAGAGCCGGCGGCGATAAGCGACGAGGAGCAGCGTGCCGCGTCTTCTCCGGCGTGGGCATCCAGGAGAGTTGAAATCAAGTCAACTTTATGGTAATGAGCTATGACGCGGTTCGGCGGCAAGCAATCACAATGAAGACGTCCACCGCTTGATAGGAGTTCAGAGAACACAGACCTGTGAACTTTGGTTCTGACCACAGTTGTTCCCAAGGGTTTGATGATTGCGGTCGCCGGATTTACAATGTTTTCTTACAGGAACATGCATTAAATAAGTTACTGGCGAGTTACTGATGTTCATTAAAGTTATATAAATTTATCTCAAAAAAAAAAAGCGGGAAACTCACGCGACGTGACAGTACAAAACTGTATAGCTGCTTCAGGATATTTCAGACATATGGACACATATTGGATAAATAGAGCAAAGCCACAATGCACGCAACTTGATCTTCCATTGTTAAATGAATTTGATAAGAAGTGTGCAACATTTTCACGCTAGAAACATGTTTTATGCAGGAATGTAACTGATATGCTGCAACGGCTCCTTTAAATACGAGATCAATGTAGCGAGTTTTGACGCTCTCGCCGCCGGAGCTGAAGGCAGACAGCGTTGTCGCCAGGGCGGCCAGAGCGACCTTGGACGCTCTCTCCGCTTTCGGTGTGAACGTACGGTAATACCTCAGACAGATGTGAGAAAAACAAACAGGAAGTGCATTTTCCATTTTCAGATTTTAATTTTAGATTACAAGGGCAATTTTTTTTTTCTTAATGACATATTCTGCATGATCATATTTTACATCCTTAATCCTACTCAATACCTAAACCTAACTTCTACCTTAATAACTATTAACTATAAGCAGTAAATTAGAAGTTTAAAGGCAAAAGTAATTAATAGTGATTCGTTGTACTCTAATATAAAGTGTGACCTTTATAATTAATGCTGCTGCATTAAAAATATTTTTTCTTTGGAGTTAAATGTGTTTTTTTACTTCCAG
Seq C2 exon
CATGAGGCAGCTAAAGTGATGCAAGATGCCATTAATGAGTTTACGGGCACACCAGAGGAGCTACGGGTCACTATCGCCAATGCTGACCTGGCACTGATGCGAGGAGATACGGAGCTGGCACTGAGCATGCTCAGAAACATCACGCCTGAGCAGCCCTACTATATACAGGCCAAAGAAAAAATGGCAGATATTTACCTGAACCACAGGAAAGAAAAACGACTTTACGTCAGCTGCTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012368:ENSDART00000044270:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF134321=TPR_16=PU(17.6=16.0)
A:
NA
C2:
PF134321=TPR_16=PD(79.4=67.5)
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:
TCAGGCTCAGAGGAAGATGGG
R:
CTGCTCAGGCGTGATGTTTCT
Band lengths:
343-1712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]