BtaINT0148118 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010047 | TIAM2
Description
T-cell lymphoma invasion and metastasis 2 [Source:HGNC Symbol;Acc:HGNC:11806]
Coordinates
chr9:93227385-93228500:+
Coord C1 exon
chr9:93227385-93227453
Coord A exon
chr9:93227454-93228374
Coord C2 exon
chr9:93228375-93228500
Length
921 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
AAATCCTGGTCTTCACTCAGATG
3' ss Score
5.1
Exon sequences
Seq C1 exon
GATCTGAGCTGCCTCTTCGACTTATATTTGGAGCCACTTCAGAGTGAGACCTTTCTTACCCAAGATGAG
Seq A exon
GTAAATAACTTCCTTCACTCAGTCCACCGACCCACAGGTTAGTCTCTGCTTGCCTTTAGTTCAGGGGTCACCCAACTCCTGGGCCATGGTACCGGTACTGGTCCACGGCCTGTTAGGAACTGGGCCACACAGCAGGAGTGAGCAGCAGGTGAGCGAGTGAAGTTTCATCCGTATTGACAGCCACTTCCCATTGCTTGCATTACCGCCTGAGCTCCGCCTCCTGAAGGATGAGTGGGGCATTCGATTCTCATAGACATGAGAACCCTACTGTGAACTGCGCATGCGAGAGATTGAGATTGTTCACGCCTTGTGAGAATCATCCTGGAACCATCCCCTCCCTTCCACCCCTGGCTGTGCAAAAATTGTCTCCCGTGAAATTGGTCCCCCCAAAAGGCTGGGGACTGTAGTAGACCTCCTAGATTTTATCTAGTGGTCCCAAAGGAACGTAGAGACTTAGGGATCTTTGGAGAGACCTAGGCGTGGCCTCCTGCAGAGCTGTTTATGTGGCTTCTGTCCCCTGAAGCACAGTGGCAGCAGTTAAGAGCGACTGTGCCCTATTTGTAGTAGAAGGTGTGACCCAAATTACCTTTTAATATGTGACTTTTTAGTGTTAACTCACAGTTATTAATTCTTTCTTACTGACTTCCATTCCCCGCCAACCCCACACCCCACCCCTCAATTTGAATTCTGAAAACTTGACATCCCCTTAAAAACGTATTCTAGAATTACAGGGACCAGAGATGTATATGACCCTCTGTGTATGAACTCTGTCCCCTCATGAATACGCTGTCTTCTTTAAAGGATTTACTTCTGTCTCCTTCTTGGTGAATGACTGTGGTTCGTTTGTACATCTGGGAGTTCAGAGCGGTGTCTAGATCTTCATCGCTAACACCCTCTTTTCAAATCCTGGTCTTCACTCAG
Seq C2 exon
ATGGAGTCACTTTTTGGAAGCTTGCCAGAGATGCTTGAATTTCAAAAGGTGTTTCTCGAGACCCTGGAGGATGGGATTTCAGCGTCGTCTGACTTTAACATACTTGAAACCCCCTCGCAGTTCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010047:ENSBTAT00000013256:15
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=FE(11.6=100)
A:
NA
C2:
PF0062115=RhoGEF=FE(21.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTGAGCTGCCTCTTCGACT
R:
GAACTGCGAGGGGGTTTCAAG
Band lengths:
191-1112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]