DreINT0021849 @ danRer10
Intron Retention
Gene
ENSDARG00000102541 | TTC21A
Description
tetratricopeptide repeat domain 21A [Source:HGNC Symbol;Acc:HGNC:30761]
Coordinates
chr24:41153606-41155119:-
Coord C1 exon
chr24:41154997-41155119
Coord A exon
chr24:41153764-41154996
Coord C2 exon
chr24:41153606-41153763
Length
1233 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
AAATGTGTGTATTGATGCAGATT
3' ss Score
5.44
Exon sequences
Seq C1 exon
GGTTTGATTATGAAGGGCTGGATTGTGTTGACGTCTGACCTGGAAGAGAACAGACCTCAGGCTATACAATACTTTAACAGTGGTGTTCGGGACCCAGGAAATCTGTTTGGACTGATGGGAAAG
Seq A exon
GTAAACCACATTTTTATTTATTTATTTATTTATTTATTTATTATTTTTATTTATACATACAGTTGAAATGTGAATTTTATATTTTCTAATATTTTATTAGCCCCCTTTTATTATTTTTTTATATTTCCCAAATGATGTTTAACAGAGCAAGGAAATTTTCACAGCATGTCTGATGATATTTTCTTCTGGAGAAAGTCTTATTTGTTTTATTTCAGCTAGAGTAAAAGCAGTTTACATTTTTTTTTAAACACCATTTTAAGGTCAATATTATTAGCCCCTTTAAGCAATATTTTTTTTTCTGACAGTCTACAGAACAAACCATCATTATACAATAACTTGCCTAATTACAATAACCTGTCTAGTTAACCTAATTACCCTAGTGAAGCCTTTAAATGTCACTTTAAGCTGTATAGAAGTGTCTTGAAGAATATCTAGTCTAATATTATTTACTGTCATCATGGCAGAGAGAGAATAAATAAAAAATTGTTTGAAAAATCTGCTCTCCGTTAAACAGAAATTGTGGAAAAAAATAAGCAAGGAAGGCTAATAATTAAGGGGGGCAATAATTCTGGCTTCAACTGTGTGTATATATTTGTATATACAGATATTACTTGCGTAGCGCATTTCACAGTAATTATTATTGTATGTAATTATTAATTGTTGTTACATAGTGTATATGCTACCAGTCAAACAATTTAGATTAGGAATTTTAATGTTTATTTTGTTTTATTTTTTTCTGCATAGACTAAATTACAAAAGATTTTATGACATATAAATGCTTTTCTTTTGAACTTTCTATTCATCAAAGAAAGTAAGTAATGTGTGTGTTTATATAGCGCATTTATCGTGTATGGCCATACACCCAAAGCACTTCACAATCATGAGTAGGTCTCTCCACACCACCACAAGAAATCTGGAGGAATTGTACTAATTTTAAAATGTTTTTGAGCAGCAAATCAGCATACTAAAACATATTTTATCATGTGACATTGTAAGGTAATTATGATTAATATTCAGCTTTGAAATCACAGAAATGAATTCCAGTTATTTTAAATCGTAAAATAAATAAATAATAATGATAATAATGAAAATCTGACTTATCTAAAACTTCTTACAGGCCGTGTACAGAGTTCATCACCACAGTCACACAATAAAATGTACTGTCAAGTAATGTATACAAGTGTGATCTGATCATTACATTAATTCAGAACATAAATGTGTGTATTGATGCAG
Seq C2 exon
ATTGAGTTCTTCATGCTGAAGCAGAATGAGTCGAGCGCTTTAGACATAATCCATCAGATCTTGCTCATTTATCCAGACTTCACCCCAGCACTCCTCATGAAGATGAAGATATTTATGGCTCTGCAGGACTACGAGCAAACAGAGGACATCGCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102541:ENSDART00000159738:5
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTTGATTATGAAGGGCTGGA
R:
CTGTGTGCGATGTCCTCTGTT
Band lengths:
281-1514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]