HsaINT0164208 @ hg19
Intron Retention
Gene
ENSG00000197681 | TBC1D3
Description
TBC1 domain family, member 3 [Source:HGNC Symbol;Acc:19031]
Coordinates
chr17:36343886-36344432:-
Coord C1 exon
chr17:36344325-36344432
Coord A exon
chr17:36343996-36344324
Coord C2 exon
chr17:36343886-36343995
Length
329 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGC
5' ss Score
10.12
3' ss Seq
CTCTTGGCCCTGCCCTACAGATC
3' ss Score
9.46
Exon sequences
Seq C1 exon
CTCATAGATCGAGCGTACAAGGGAATGCCCATGAACATCCGGGGCCCGATGTGGTCAGTCCTCCTGAACATTGAGGAAATGAAGTTGAAAAACCCCGGAAGATACCAG
Seq A exon
GTACGCTCAGCCAGAGCACAACAAACAGGACAGGCCGTGTCGGGGCCCAGGTCTCCAGCTGGAGGGAACGTCAAGACCACCCTGGGGAGCTGGGGGTGAAGGTCAGATGAACACCCTGGGCACAGATGGTGACACAGTCACCACAGACAAACTCAGCTCTGGTGACCCTCCCTGGCTTCAGTAACAAGCCAAAATGCAGCTTTCTGCAGAAGGAAACCTTCCTTCTGTCCTTCCTTCCCGAAGTGCTGACTGTGGGCTGACTGCCACTGGGGGCAGGGAGTCTTCCATCTGTTCTGAGACTGCTTCCTCCTCTTGGCCCTGCCCTACAG
Seq C2 exon
ATCATGAAGGAGAAGGGCAAGAGGTCATCTGAGCACATCCAGCGCATCGACCGGGACGTAAGCGGGACATTAAGGAAGCATATATTCTTCAGGGATCGATACGGAACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197681-TBC1D3:NM_001123391:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.200
Domain overlap (PFAM):
C1:
PF0056613=RabGAP-TBC=PU(15.8=69.4)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(22.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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:
TCATAGATCGAGCGTACAAGGGA
R:
TGGTTCCGTATCGATCCCTGA
Band lengths:
216-545
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)