DreINT0021010 @ danRer10
Intron Retention
Gene
ENSDARG00000088795 | TGFBR3L
Description
transforming growth factor, beta receptor III-like [Source:HGNC Symbol;Acc:HGNC:44152]
Coordinates
chr3:5834520-5835611:-
Coord C1 exon
chr3:5835523-5835611
Coord A exon
chr3:5834681-5835522
Coord C2 exon
chr3:5834520-5834680
Length
842 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
GTGCCGTGTGTGTGTGTCAGTGT
3' ss Score
7.61
Exon sequences
Seq C1 exon
TATGTCGGACCTTGAGTTCGTAAATGTGTGCGTAATGAAGATTCTTGCTGCTGTCCTCTGCCTCCCGCTGACGGTGCTTGGAATTGCAG
Seq A exon
GTAAAATACACCATCAACACAAAGATGATGAGGATGGATCCAGGAGTAGTTTTATATATATGCAGGTGAAATATACAGCAGCCAGGCAGATTTCTTGAGTGTGTGTTTATATACATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTATATATATATATATATATATATATATATATATACACATACACATACACATATATATATACATACACATACATATATATATATATATATATATATATATATATATATATATATATACACATACACATACACATATATATATATATATATATATATATATATATATATATAAACACACACAAACACACACTAGTACTCACACTCATAGCTCACACTTATTTAGCGCACCAACTTTCACCCATATCAGATCTGCAAATGAAGCTCTCACTGCCGTCACACCACACGCAGCACACTGCTAATGGATATATATATGTGTGTATTAGTACCTTATGATGAGCACTTGTTTCTTTGAGGGTTAGTTTAGGGTTCAGGTTAGGACTAGGTGTAGGCCATAGACACTATCATTAACCTGATAGAAAAACAATGGAAGTTTACGCAATATAGATAGTGAAGCAAACCTGCGTGCGTGCCGTGTGTGTGTGTCAG
Seq C2 exon
TGTCCAGCAGGGAGTTGCAGTGCTCCGTGTCTCCAGTGGCGGCGCTGCACCCTGTTCAGGCCCAGCTCGAGCGCTTTGAGGCGGGAACAGGTTGTGCATCCAGAGAGGGCGGAGCTAAAGAGACACATGTTATCTCAGTGGGCGGAGCCTCCAGCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088795:ENSDART00000125008:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.019
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTGAGTTCGTAAATGTGTGCG
R:
CTGTCTGCTGGAGGCTCCG
Band lengths:
241-1083
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]