RnoALTA0022633-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000033090 | Ltbp1
Description
latent transforming growth factor beta binding protein 1 [Source:RGD Symbol;Acc:68379]
Coordinates
chr6:21376558-21378518:-
Coord C1 exon
chr6:21378294-21378518
Coord A exon
chr6:21376633-21376832
Coord C2 exon
chr6:21376558-21376632
Length
200 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TGTCCTCCTGATCTTTGTAGTGA
3' ss Score
7.15
Exon sequences
Seq C1 exon
TAATTTGCCATCTTCCATGTATGAATGGTGGCCAGTGCAGTTCAAGGGACAAATGTCAGTGCCCTCCAAATTTCACAGGAAAGCTTTGCCAGATCCCTGTCCTTGGTGCCAGTATGCCTAAACTCTACCAGCACGCCCAGCAGCCAGGCAAGGCACTGGGGAGTCACGTCATCCATTCCACACATACCTTGCCTCTAACCATGACCAACCAGCAAGGGGTCAAAG
Seq A exon
TGAAATTTCCCCCCAACATAGTCAATATCCATGTGAAGCATCCTCCTGAGGCTTCTGTGCAGATACACCAGGTTTCCAGAATTGATGGCCCAGTGGGCCAGAGGGTGAAAGAAGTGCAACCGGGCCAGTCCCAAGTCTCTTACCAAGGGCTGCCCGTCCAGAAGACCCAGACAGTCCATTCCACATACTCCCACCAGCAG
Seq C2 exon
GTCATTCCGCATGTGTATCCCGTGGCTGCTAAGACACAACTTGGACGATGCTTCCAGGAAACCATTGGGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033090-14-13,14-12,14-11-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.158 A=NA C2=0.228
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=35.5)
A:
NA
C2:
PF0068312=TB=PU(2.3=1.1)
Main Skipping 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:
TTTGCCATCTTCCATGTATGAATGGT
R:
ACCCAATGGTTTCCTGGAAGC
Band lengths:
292-492
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]