MmuINT0160127 @ mm10
Intron Retention
Gene
ENSMUSG00000023800 | Tiam2
Description
T cell lymphoma invasion and metastasis 2 [Source:MGI Symbol;Acc:MGI:1344338]
Coordinates
chr17:3511057-3512955:+
Coord C1 exon
chr17:3511057-3511175
Coord A exon
chr17:3511176-3512846
Coord C2 exon
chr17:3512847-3512955
Length
1671 bp
Sequences
Splice sites
5' ss Seq
GAAGTCAGT
5' ss Score
1.02
3' ss Seq
TCTTTGTTTTTACAATGTAGGTG
3' ss Score
8.74
Exon sequences
Seq C1 exon
AAGCACTAAAGGCCATGGAAAAAGTCGCCAGTCACATCAATGAGATGCAGAAGATCTACGAGGATTACGGGATGGTGTTTGACCAGCTGGTGGCAGAGCAGAGTGGCACAGAGAAGGAA
Seq A exon
GTCAGTGGGGGCTTTGGACTGGGCAGCTTCATGGCTGGGTGGATAAGCTTAGGGTAACTTCCAGAGTAGCTACTTGTTAGACTTTCCTGGGGGAGACAAAGCCATTTTTTGCTCTTAACATATAAAGTAATTATATAATTCATAGAGAAATGTAGTGTAAAATGTATTAAACTAGTCTAACAATGTAACCGTGTCATGTTAGCATTGTACAGAGGCAACAGAAACACCAGAGCTGGCTTCTCCCACCTCCTCCCTTTCCTATGCGAGTGGAGTTGTAGGTCCAGAACCCATGGAAGGCTGGGCTTGGGGAATGGAGGAAGGAAGGAGCCTAGAATGTGGATAAAATATGGGGCTTGTTCCTTTCCGGTGACCGTTCTGTTTTGGCATTGGATATAAGTGATTACCTGCTTACTCAAGCAGACCAAGTGATCAGTGACATTCTGTGTTTTGTATGCTTTTCACTTTGTATGGTTGCTAGACTTAGAACAATGAGCTTTTAAAGCACATATAAGAAGTAGAAAGTGGACTGCCATATCCAGGGATCTACCCCATAATCAGCTTCCAAACGCTGACACCATTGCATACACTAGCAAGATTTTATCGAAAGGACCCAGATGTAGCTGTCTCTTGTGAGACTATGCCGGAGCCTAGCAAACACAGAAGTGGATGCTCACAGTCAGCTATTGGATGGATCACAGGGCTCTCAATGGAGGAGCTAGAGAAATTACCCAAGGAGCTAAAGGGATCTGCAACCCTATAGGTGGAACAACATTATGAACTAACCAGTACCCCAGAGCTCTTGACTCTAGCTGCATATGTATCAAAAGATGGCCTAGTCGGCCATCACTGGAAAGAGAGGCCCATTGGACACGCAAACTGTATATGCCCCAGTACAGGGGAACGCCAGGGCCAAAAAAATGGGAATGGATGGGGAGGGAAGTGGGGGGGAGGGTATGGGGGACTTTTGGGATAGCATTGGAAATGTAATTGAGGAAAATATGTAACAAAAAATATATAAAAAAAAAGAAGTAGAAAGTGGCAGGAACTGAAAAGGGACTGAGCTCCTTTTTTTTTTTTTTTTTTTTTTTTAATTTAGGTCAATTAGGTGTATTTTATTAGCAGCTCTATGTAGTCTATCAACCTGAAGTAAACGCTAAGTAAACAGACTCCTTAGATGAGCATGGCTTCTGTGGCAGAATTGTCGCCTATGTAAGTGTGTACTAACATACACACTTAAGTAAAAAACGTACCACTTCCTATTATTAGTAAACAGTGCTGCAGTCCCAGCCATTTGGGAGGCTGATGCAGAATTGCAGTATCAAAGCCTGCCTGGGTTTTAGGGTAAGTTCAAGGTCAGCCTAAGAAATTTAGACGGACTCAGTCTCAAAACAAAAAGTAAAAAGAGGCCCAGGCCAAGGATGTAGCTCAGTGGTAAAACCCTGGTCCAGCGGGCAGGAAGCATAAATCATCTCTATTACTAATATTAATAATAGGGGTGCAGCTTGACGCTTGCCTCACATTTGCAGACATTCCACCACTTCACACTGTGCTGATGGAGACTATATAAATAAAACAGTGAGCATGTACATTTTAGCAGTGAGCACATGTGTACAATTCTATGTCTAACATCAAAATCTCCATGGTCTCCACATCTTTGTTTTTACAATGTAG
Seq C2 exon
GTGACAGAGCTGTCCATGGGGGAACTTCTGATGCACTCTACAGTTTCCTGGTTGAATCCGTTCCTGTCTCTAGGAAAAGCCAGGAAGGACATTGAGCTCACAGTATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023800:ENSMUST00000072156:21
Average complexity
IR
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=PD(7.4=35.0)
A:
NA
C2:
NO
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:
AGCACTAAAGGCCATGGAAAA
R:
ACTGTGAGCTCAATGTCCTTCC
Band lengths:
222-1893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types