RnoALTA0022636-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000033090 | Ltbp1
Description
latent transforming growth factor beta binding protein 1 [Source:RGD Symbol;Acc:68379]
Coordinates
chr6:21205277-21210571:-
Coord C1 exon
chr6:21210449-21210571
Coord A exon
chr6:21205427-21205473
Coord C2 exon
chr6:21205277-21205426
Length
47 bp
Sequences
Splice sites
5' ss Seq
ATCGTAAGT
5' ss Score
10.44
3' ss Seq
AATCGTTCTGTTTTCAATAGGGT
3' ss Score
9.56
Exon sequences
Seq C1 exon
ATGACTATGCCCAGCTGTGCAACATCCCTGTGACAGGACGGCGGCGACCATATGGACGGGATGCGTTGGTGGACTTCAGTGAACAGTATGGCCCAGAAACAGACCCTTACTTCATTCAGGATC
Seq A exon
GGTGGAAAGACAAACACTTGTAACCAGCTTCTGCCTTTGCCTTGTAG
Seq C2 exon
GCTTTCTAAACAGCTTTGAGGAGCTACAGGCTGAGGAATGTGGCATCCTCAACGGCTGTGAAAATGGCCGCTGTGTAAGGGTTCAGGAAGGTTATACTTGCGATTGCTTTGATGGATATCATCTGGATATGGCCAAGATGACCTGTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033090-46-49,46-48-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0068312=TB=PD(11.6=11.9)
A:
NA
C2:
PF0000822=EGF=WD(100=58.8),PF062476=Plasmod_Pvs28=PU(40.0=66.7),PF0764510=EGF_CA=PU(0.1=0.0)
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:
GCGTTGGTGGACTTCAGTGAA
R:
TACACAGCGGCCATTTTCACA
Band lengths:
138-185
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]