MmuINT0160126 @ mm9
Intron Retention
Gene
ENSMUSG00000023800 | Tiam2
Description
T cell lymphoma invasion and metastasis 2 [Source:MGI Symbol;Acc:MGI:1344338]
Coordinates
chr17:3509401-3511175:+
Coord C1 exon
chr17:3509401-3509580
Coord A exon
chr17:3509581-3511056
Coord C2 exon
chr17:3511057-3511175
Length
1476 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CATACTCTCATATTTTTCAGAAG
3' ss Score
8.79
Exon sequences
Seq C1 exon
CTAAAACGGACAAGGCCTTCAAGGCTTTTCTGGATGCCCGAAATCCCACCAAGCAGCACTCCTCCACGCTGGAGTCCTATCTCATCAAGCCTGTTCAGAGAGTGCTCAAGTATCCTCTGCTTCTCAAGGAGCTAGTGTCACTGACTGACCATGAGAGTGAAGAACACTATCACCTGACAG
Seq A exon
GTAAGGCTGGAGGGAGGCTGCTTGTATTCAAGCTGGTCAAGGGTGTTTTCTGGGTGTCCATAGCTCTTCCCCAGGCATCCCCGGTACTGTAACTGCTCATCTCAGTTACATCTACTACAAAAGAAAACAGCTCAATGTAGCCATCCCCCGAGGTGCTCAATGTAGACCGAAACTCACAGAGCTATGTCTCCCTTCTCTTCTGAGTGCTGGGTCTAAAGGTGTACATAACTGCACCTGGCTTACAGGCAATCTAGCAGTGAGATTGCTCTTACTAAATTGATCAAGAGGGGCGATTTGATTTAAAGTTTTAAACTTATGTAATTTAGGTCTAGTGAGTTGAAGTGGAAGACCACAGGTCACTTGGCCAGTGAACAGTGCTATAAGAAGTCTTTCTTGCACTTTCTGTGGCCTTGGCTGTGCTACAGCTAAGGCTCATGCTTGCTGCATGGGGTGCCACCTTGTGGAGATCTTTGAGTAGTGCTCAGCCAACAACAGGCATCCAGTGGCAGCTGATACCTTGGTGGCTGGTGTCTCACAGGGGATGGCTACAATGAACTGACCTGAGGTATGGTTTGACAATAGCACCCAGGCTCTGGAGATGAGAGCTAAGTGTCCCTTAGGCTCAGAGAGGAAGTGATTTGCTTCCCACATGTTAAAGCTAGCAGGTCTAGTTGAGCCACAACAACATTCCCAGACAGCAGCAGGTTAGTTGAACTGAGAAGAATATAAAGCAAACTTGTTTTTCCAATGTATACATACTTTGGTATTATAACCAATGAAGCCAGGATTTTTTTTACATGAATGCTAAAATTGTACAAGTAAATGATATAAATTGCAATTAGTCCTTTGTCCCTCATATGCCCCTTGCCCAAGTTATAGACAAATAGCAAGTAGAATGCAAACAACTGAGCTCACAGTTGGACAGTTGGGTATTTGTAATTTACAGACACCAGAAGTATTGTACTTTTTCCTTGAACTGGAGAGCCAGACTCTAGGTCTATGTGTTTGAAGCAGGTGCTAGCACTGAGTCTTGCCTCCTGTCCTCTGACACTGTAACTGAGCAACTATGCTGGATTCCTAGCCTGCCAGGTAGTTTAGAGGAGACACTGCCTAGAAGAGCAGCTCTCCCGAGGCCTGACATGTTGGGTTCAATTCTGGCGCCACTACTTATTTTTCCTCTAGAGCTCTGTTTTATATTCTGCAATATGGTATTGGTTACAGTCATTGTGTTCTTTGGGGACACATAAAACAGTTAAGATGTGTAGCTGGGCCAAGGCTAGCTTTATGAATGGCACTTTTCACAGTCACCTCATTTCTGAGAGGATTTGAGGAAGAAGACAGTCTGACTACCCTCGATCGTTACACCTGCGTTAAATGGGTTGTACCTCAATCACGTTACCATTTGCTGAGAGCTGGACTCCCATGTTGGCATGTGATAGGATTCAGAATAAGCAAGCATACTCTCATATTTTTCAG
Seq C2 exon
AAGCACTAAAGGCCATGGAAAAAGTCGCCAGTCACATCAATGAGATGCAGAAGATCTACGAGGATTACGGGATGGTGTTTGACCAGCTGGTGGCAGAGCAGAGTGGCACAGAGAAGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023800-Tiam2:NM_011878:20
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(31.6=100)
A:
NA
C2:
PF0062115=RhoGEF=PD(7.4=35.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACGGACAAGGCCTTCAAGG
R:
TCCTTCTCTGTGCCACTCTGC
Band lengths:
295-1771
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: