RnoINT0087614 @ rn6
Intron Retention
Gene
ENSRNOG00000020871 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:RGD Symbol;Acc:1307033]
Coordinates
chr1:84118046-84119098:-
Coord C1 exon
chr1:84118946-84119098
Coord A exon
chr1:84118462-84118945
Coord C2 exon
chr1:84118046-84118461
Length
484 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGG
5' ss Score
8.99
3' ss Seq
TTTCTATCCACTCCCCCCAGACA
3' ss Score
9.14
Exon sequences
Seq C1 exon
GAGCCTTGTCTGAGCCCTATGAGGGCCTAGAGGCCGAGGAGTGTGGTATCCTGGATGGCTGCGCCCACGGCCGCTGTGTACGTGTTCCAGAAGGCTTCACCTGTGATTGTTTCGACGGCTACCGCCTGGACATCACCCGCATGTCCTGCGTCG
Seq A exon
GTGAGGAAGGGAAGGAAAGAGAAGGGTAAAACAAAAGCGAATTTGGTCAGATGGTGATCAGGAACCTCCAAGAAAGGACCTCATTACAGACAGGGGCCAGACCATCGGCGAGGGAGTAAATTAACTCTTGCTCAGGGGTGGTGCTTGACAGAACAAAATGGGGTCAGAGTGCCTGAGAAGTCGGGTTCCTATGAGTGGCGGAGGTGGGTTTGGGAATATGAAAGGAATCCTGCAGATGTTATTTGTGTTTAGGGCTTGATGCATGCTAGGCGAGTGGTCTACCACTGAGCCCGTGCATCTTGGCTTGCAAGAAAGAGGGAGACACTATACCACCCGCTTAGGCTCACACAGCCAGGAGGTAGCAAGTGATAAGCTGCATACCACAGGAGAGACTCTGCATCCATGATCCCCTACCTCAAAAGACTGAGAGGAGATGGCCTCATTCCTGGACATGACTAACAGTCTTTCTATCCACTCCCCCCAG
Seq C2 exon
ACATCAACGAGTGTGACGAGGCTGAGGCAACCTCCCCACTCTGCGTCAATGCGCGCTGTGTCAACACTGATGGTTCCTTCCGCTGTATTTGCCGTCCGGGATTTGCACCCACGCACCAACCACATCACTGTGCGCCTGCTCGACCTCGGGCCTGAGCAGCTGCGTGCGCCTAGCCTCCCATTATAACTGAGCACTAGGAGCTTCCAGAGTGCACCTAGCCTTCCTCTAGTCTGCATGTGTGTGAGGATGTCAGACAGTCTCGATGTAGGATGGACGGACACAGAGGGGTGCCTTCTATGGCACCAGTTCATCATGCCTAGCCCCTCCCACCAGTGCCCTGGGCCTGTCCTGGGTTCCCTGACACATTTCTTGCCCTTTTATACAATTTTCAATTAAACCACCTATTTTGTACTTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020871:ENSRNOT00000028322:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=65.4),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=84.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGTGATTGTTTCGACGGCT
R:
TAGAAGGCACCCCTCTGTGTC
Band lengths:
351-835
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]