MmuINT0160096 @ mm9
Intron Retention
Gene
ENSMUSG00000002489 | Tiam1
Description
T cell lymphoma invasion and metastasis 1 [Source:MGI Symbol;Acc:MGI:103306]
Coordinates
chr16:89809613-89811840:-
Coord C1 exon
chr16:89811715-89811840
Coord A exon
chr16:89809722-89811714
Coord C2 exon
chr16:89809613-89809721
Length
1993 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
ACTTCTTCTCTTTAATCTAGAAA
3' ss Score
8.68
Exon sequences
Seq C1 exon
CTTGATGTACTTTTTGGAAATTTAACCGAAATGGTGGAGTTTCAAGTCGAGTTCCTTAAGACTCTAGAAGATGGAGTAAGACTGGTCCCTGACTTGGAAAAGCTGGAGAAGGTTGACCAGTTCAAG
Seq A exon
GTAAGCCCGGTCCTCAAGCTGCATAAAGCCACCCCGCTGTGCTGCTGCTGCCTGTCTTGTGGGTCAGGGTGAATGCCTGACGCTGTGCTGCAGGCGGAGCTCTGAACTTCAGGAGCGTGTCTGATGCTGTGGACTTGATTAAACGTATTTAGCTGCCAGTGTCTCCTTTGGAAGCAGCATAGACCTGAAGGTTACGTTAGCTAGTAACAAAATTAAATTAGCCGCTCGGGTCTCTTAGTAAGGAGAATCCATGCTGTCCTGGGGAACTTTGATGGTCATACTGATCCCTGTCCAAATGCATAGTGTCCTTGTAGTCTTAGTGATGATTGTGACTATGGCCCCGGGAAGGGTTACTCACACATGGCTCATTTCCTCTCCCTAGTTCATATTCCCTGGCAGGAATTTCCTGTGCCAAATTTCAAATCAACAAAACTCAATGATGTGTGTGCTGGCTTACATGTCACACCTCCTGTACTTTTAACACTAGGATCAACTGTGATGTCATTGACAAAGCACCACCCATATTTAAAGTATAGGATCTGAGAATATATATATGTATGTATGTATGTATATATATGTGTATATATATATATATATATATATTCTCACATATATATGTGTGTATGTATACATACACACACATACACACTCATACACGAGCACATATACACACATGCACACACATGCACACACACAGACACATACATATACACACACATATGCACACACACACACACACACACACACACACACATTCCCAAGTGCCCGTGAAGCCGTCACCATAGTCAGGACAATGACATAATCATCTTCAAAAGTCAGTTCCTGTCACTTGTGATTTCCTGCTCCCACCTCGCACTGCCTCCCACCCGCAGGCAGCCATGATAATGTGAGCTGGTTCACATCCGGCTGATGGAACTTCCTCTTGGGACTCTGCAGTGCATGCTAGCCTGTGGGGCTTCCACAGTCCTGCAGGTGACAGCACAGGGCACCTGCAGTAGGAGTCTCTCCCATCATGTGCAACACATATCGGAGATAACTTTTTTCTGGTTACTGTATGATAAACACTTGGTAACCATTACTGTAAACAATGTGGTGTTGTTTTGTGATTCTTCCCAGCTTTTCCTGTTTAATTTGTGATCATGACTCGGATAGTCACATCTTACATAGACCTGTAGCCGTGGCCCTGGAGAAGTAGAGGAAGAGGTGAACATGAAGGAAGAGACTTCAAGTCTCTGATTACCGTGGATGCCAGTTACGTGTGGTCTAAAAAAGACATTTCCTTTATTAGTAGATGACCTGAACTTCCTCCACACTGTGTGTTGGATAAACTTTGTGTCTGTGAGCCCAGGTTATCATTCACATGTAAAGTCTTAAGCCCTTGCTTGGAACCTAACTCTTAATTCTTTTTAAAAAATATTGATTATCGTTGTCATGTGTGCGGACACACGTGCCACGGCGAGCATTTGCAGGCCAGCTGGCCCTCCCCCTCCACCCTTCCACGGGTTCCAGGGAGAGAAGTTCCCAGGTTTTTGTAGCAGGTAGTTATAACTGGTGACTCACCTCGTCAGTTCTGTGTTTTAATTCTAAGCCTAAATGAAGAAAGCCCCTCCCTGAGCAGGACCAGAGCCTCGTGGACCTTCTGAGGCTCCCTCCTCATTCATAGGGCAAATGGGAGGGATAGAAAGCTACACACCAAGTGTATCTGTCCTAACAAGGAAGGTCTGTCCCGGGGTGATTGGTCACCTCGGGGCAGCGTGTCCAGGCTGAAGAGATGGTGCCTGCTTTCTACACTTGAACGTCTTCTGCGTTGGTGTTGCTTAGGTTCTTATCTGCTCCCTGGGAGACGACAGGAGACGACGGAGGGGCTTAAATGCTTTGGTAGGCCTGGAGACTGGGGTTGGTGCAGAGTGAGGCAGAGGTGATCTCCTCCTGTCCTCGCCTCGTCTAAATGAGGAGGGGCACGAACCCACCGCACTTCTTCTCTTTAATCTAG
Seq C2 exon
AAAGTGCTCTTCTCTCTGGGGGGATCCTTCCTGTACTACGCGGACCGCTTCAAGCTCTACAGTGCCTTCTGTGCGAGCCACACAAAAGTCCCCAAGGTCCTGGTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002489-Tiam1:NM_009384:19
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
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGTACTTTTTGGAAATTTAACCG
R:
CTTTCACCAGGACCTTGGGGA
Band lengths:
233-2226
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: