RnoINT0150339 @ rn6
Intron Retention
Gene
ENSRNOG00000050573 | Tgfbr3l
Description
transforming growth factor beta receptor 3 like [Source:NCBI gene;Acc:688681]
Coordinates
chr12:2543569-2544492:-
Coord C1 exon
chr12:2544172-2544492
Coord A exon
chr12:2543684-2544171
Coord C2 exon
chr12:2543569-2543683
Length
488 bp
Sequences
Splice sites
5' ss Seq
CGGGTTCGC
5' ss Score
0.52
3' ss Seq
TTTCTTCTCTTGCACCTCAGTGT
3' ss Score
8.15
Exon sequences
Seq C1 exon
GCGGCCCTGGCCCGTCCTTCGCCAAGATGGGGCCTAGCCCTGCACCGCTGCTCAGTAACGCCTTCTTCACGCCCGGCCCTGGGACCTGCCCTGGTGCTTCTCCGTGGGGGTTGCCCCGCCGACGACTCTGTCAGCTTCTCACCACCTCCACGCCCGGATGCTGCTAGCGTCGCACGCTTCAGCTTCCGCCTGCGCCCGGTATTCAATGCCTCAGTACAGTTCTTGCACTGCCAGATAAGCCGTTGCCGCCGTCGCCGCAGTCACCACCGCCGAGCTGTCCGCCAGACACCAGTGCCTTTGACCCCACCAGCACCGTTGCGG
Seq A exon
GTTCGCTAGTAGAAACAGCAGTCTCGGAACCTGCGGAATATTCTCTAGCTAGGCAAAAGCGTTTCTGGCAGCAGAGGGACCTTAGGAGGCAAAGTGCTTTATGGTCTGGGTCCCTCTCTCTCAAGATGGGTACTACATGTAGAGATATCCCTCATAGGGCCCTGCAGAAGAACTCCCAGTAGCCTGGAAATGTACAGCCTTCTGTTCTAGGACCCTTGGGTGGGATCTGGAGTTCTTTTAGGGCTGGAGGGCTAGATTCAAGAAAACAGTGTGATAAGTCTAAACTGCACATTTGATGTGCAGACCTCACTTGAGACCTAGAGGCTGAAACCATTTTTATGTTTTGGGGTTCTGCCCAGGGAGGAGTCCTGTGGTAACCACCTAGCTCTAGTGGAAAGCTGGAAGCTTCAGCCCATCTTAGGAGCTCTGGAAGACCAGACCCAGAATTACCAAGTCACTGAAGTCTGGTTTCTTCTCTTGCACCTCAG
Seq C2 exon
TGTCTGCCTCAGGATGAGGCATGTGCCGGCAGCAGCTTGAGCCTTGGTACTGACAGCCCCCACCTGCACATGTTGACACAGCCCATCGTGGTTACAGTACCTCGTCCGCCCCCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050573:ENSRNOT00000075527:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.243 A=NA C2=0.564
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=PD(62.5=88.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGTAACGCCTTCTTCACGC
R:
CGATGGGCTGTGTCAACATGT
Band lengths:
358-846
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]