MmuINT0160123 @ mm9
Intron Retention
Gene
ENSMUSG00000023800 | Tiam2
Description
T cell lymphoma invasion and metastasis 2 [Source:MGI Symbol;Acc:MGI:1344338]
Coordinates
chr17:3506767-3507817:+
Coord C1 exon
chr17:3506767-3506892
Coord A exon
chr17:3506893-3507708
Coord C2 exon
chr17:3507709-3507817
Length
816 bp
Sequences
Splice sites
5' ss Seq
CGAGTAAGT
5' ss Score
10.15
3' ss Seq
CCTTCTCTCCTGCCTTCTAGAAA
3' ss Score
10.59
Exon sequences
Seq C1 exon
ATGGAGTCACTTTTTGGGAGCCTGCCAGAGATGCTGGAGTTTCAAAAGGTGTTCCTGGAGACGTTGGAGGATGCGATCTCCGCTTCCTCGGACTTTAGTGTCCTGGAAACCCCCTCACAGTTTCGA
Seq A exon
GTAAGTATTTTGAATTTGGATTAACGCAAATGTAGTTGAGTAGGATGTAAACTTCTTTCCTCCATGTCGGTGAATTCGGTGTTTTTATTGCGTTGCTTGCTTTGTGGGTGGGGAAAGGCAGCTTCGTGGTTTAGCCCTGGAGTGACTGTGTTCAGGGGTCAGGCTGGATCACCTGATCCGCCACATCTACTCCACTGACTTTCAGGAAAGGTACTGAGGTAGAAACTTCTTTTAAAGCAAGAGCAGCTCCCCTGTACTGGGTGCCTCTCTTATGAGGTCTTAGGAAACTGGGCTGGAGAACGTGGATTCCAGACGGCTATCAGGGAGCTTTGTCCTTGTGAAGGAGTAACTGTAAGGACCATGGCTGACAGGGAGTTCTTCCAGAGGTGAGAGGGAAGGCAGTAGAAAGGAAGTTAGAAGCATACAGTAGGAACATTCATCCCAAGTATGGAGTAGGTGGTTCTGAGAATGTCCATACCCCACCCCTTAAGCCAGTGGTGCTCAACCAGTTGGTTGTGATCCTTTTGGGGGTCTAATGACCCTTTCACAGGGGCTGCCCAAGACCGTCAGAAGTTGGTAGAGAAACAGTGCCTTAGCCCATTTGTAGTGAATTCCTTCAGATAGTTAATCTGCTTCCAAGAGGTGTCTCTGTCAGAACCTTTCCCACCAGTCTAAGGTCTGCTAGGGCAAGGCTTAGACTGTTCTCCATCTACAGACTGAACAGAACAGTACTGACAATTGTCAGAAGCAAATTCTTTGCTGAAGTCAGAGCACATGCAAGGCATGTCTGATTTGACCTTCTCTCCTGCCTTCTAG
Seq C2 exon
AAATTGCTGTTCTCCCTTGGAGGTTCTTTCCTCTACTATGCGGATCACTTTAAGCTATACAGTGGGTTCTGTGCCAACCACATTAAAGTACAGAGGGTTCTAGAGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023800-Tiam2:NM_011878:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062115=RhoGEF=FE(21.6=100)
A:
NA
C2:
PF0062115=RhoGEF=FE(18.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCACTTTTTGGGAGCCTGC
R:
TCGCTCTAGAACCCTCTGTACT
Band lengths:
230-1046
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: