HsaINT0167093 @ hg19
Intron Retention
Gene
ENSG00000146426 | TIAM2
Description
T-cell lymphoma invasion and metastasis 2 [Source:HGNC Symbol;Acc:11806]
Coordinates
chr6:155569134-155571103:+
Coord C1 exon
chr6:155569134-155569313
Coord A exon
chr6:155569314-155570984
Coord C2 exon
chr6:155570985-155571103
Length
1671 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
TATGATTTCATATCTTGCAGAAG
3' ss Score
9.22
Exon sequences
Seq C1 exon
CTAAAACTGACAAAGCCTTCAAGGCTTTTCTGGACGCCCGGAACCCCACCAAGCAGCATTCCTCCACGCTGGAGTCCTACCTCATCAAGCCGGTTCAGAGAGTGCTCAAGTACCCGCTGCTGCTCAAGGAGCTGGTGTCCCTGACGGACCAGGAGAGCGAGGAGCACTACCACCTGACGG
Seq A exon
GTGAGGCGGCGGCGGCACCTCCGGGCGAGGGCCTGCACAGGGCGGCGAGGGGCTGCCAGCCGTGCCCTGGGCCTGACAGCTCACCTCTTCCCCGCCTAGTGGCACGTCCTAAGTCACTTTTCAGTTCTGCGATGGTTAATCTTAGGTTTCACGTGAATATGTGAAACTAGCTAGGCGTCTGGGCACTCCTTTAGAGCTTACAAAATACTTGGGTAGAAATGATCTCATCCGGGTAGCGCCATACTCCTCCTATGCAGGGATGATTCTGTCTTCACTCTCAAAATAAGTAAATTACCTCAGGTCACGTGGCTGTGAAACAGTGCCGCTGGAACTGAAAATCAGGCCTATTTTCCTACCACTTGGTTAAGTTTTGTGGGGTTCGCTGCCCGAGCTGCTGGTCAGATTTGTTGGGTGAGGCTCCACCTTGTGGAGATCTCTGAGCAGAGCTCGGCTTCAAAACCAAACTCCCAATGATGGGTTATGCTTTCAAGTCGCTACTGGTGTGTTACTGTTTGAACCTCTGAAATTACTGGCCTGAGACACAATTTATCAAAAACACAAAGCCTTGCAGTTTGATAGTAAATAGAGGATCCTTAAAGAGGGGCTTTATTTGGGTTGGAGATAGTGATTTGTTCATATGTTGAAACTAGGAGGTCCAATTAAACCATAGGTGATAAAATTTATGGGGAGAGAGAGGCTTATTAACACTTTAGTATTACTGAATAATAAATACTGAGAAGAGCGTAAATTAAACTGGCTTTTTTTCCATGACAAGCATACTTTGGTATCAAAATCAACAAGAGGAAAGCATTTTTGTATGACAGTTAACTTCTATAAGTAAATAATACAAATTATGTTCAGCATTCATACTATGTAAAAACTTCATTTTGTATTAAGATGATCTTTAGAAGGGTTTGATTTAAAAAACTTCCTTCCAAACTTCCCTCCAGTTAGAATTAAAATGCTGAATTGGGAGAAAAAAAAGTATAAAGAATACTGAATTTAGAAGTGACCTAAAATTTTGCTTTTTGGCTTTTATAAAATAATGTATCTCTCATATTCCCTCGCGGAAAGTTATGAACATATACCATATATAAATGCAAACAATTGTTCTGTCAGTCAGTCATGTACTGGGGTGTTTTTAAGTTCCATTTAAACCTAGATCCGGGTTCCCAGAAGGGCAAGCCAAACTCGAGAGCTGGTGCCCTAAGCCCAGTCAGGCTTGGGTTTGAAGCCTGGCTCCATTCTTGTGTTTTCCTCTCTGGAACTCTGGCAGAATATCCTGCACTCACTTTTCTCATCTGTAAAATGGGATGGTTTAGTCTTTGAGTTATTGCGGGCACTAAATGAGATGATTCACAGAAATCACCTGTCGTGATCCTTGCTAAGTAGAAAGTGCTCCAGAAATGTCAGTTGTTGTTATTAGTGATACTTTTCACTGATACTCTGTCTCATTTCAAAAAGAATTTGAAGTAGGAGATAATTTTGCTGTTCTTCATTCTAAGGGCTGGGCTACAGTGGGCTGTTGTGACTTATTCTGAATGTAATGCTCCTGCTAGTGGGTACTGGTCTGGAATCCTGAGTTGAATCTTGACTCCATTCATTATTACTGTTGGATAGAATCTAAAACAAATAACAGTTATGAAATAAATATGATTTCATATCTTGCAG
Seq C2 exon
AAGCACTAAAGGCAATGGAGAAAGTAGCGAGCCACATCAATGAGATGCAGAAGATCTATGAGGATTATGGGACCGTGTTTGACCAGCTAGTAGCTGAGCAGAGCGGAACAGAGAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000146426-TIAM2:NM_001010927:6
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=0.013
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
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAACTGACAAAGCCTTCAAGG
R:
CTTCTCTGTTCCGCTCTGCTC
Band lengths:
294-1965
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)