BtaINT0148121 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010047 | TIAM2
Description
T-cell lymphoma invasion and metastasis 2 [Source:HGNC Symbol;Acc:HGNC:11806]
Coordinates
chr9:93233465-93235605:+
Coord C1 exon
chr9:93233465-93233644
Coord A exon
chr9:93233645-93235486
Coord C2 exon
chr9:93235487-93235605
Length
1842 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
TATGACTGCGTATCTTGCAGAAG
3' ss Score
8.31
Exon sequences
Seq C1 exon
CTAAAACTGATAAAGCCTTTAAGGCTTTTCTGGATGCCCGGAACCCCACCAAGCAGCACTCCTCCACGCTGGAGTCTTACCTCATCAAGCCAGTTCAGAGGGTGCTCAAGTACCCGCTGCTGCTCAAGGAGCTGGTGTCCCTGACGGACCACGAGAGCGAGGAGCACTATCATCTGACGG
Seq A exon
GTAAGAAGCGGGGGCCGAGGGGGGACCTGACAGCTGCCTGGTGTCACGTTCGGAATGCTTCTCAGCATCGTGATTATTCACCTTTAGGTACCATTTAGTGTGTGCAAATAGCTAGGCATTATGGCCACCCCTGTAGATGGGCACAGCATTTCCAATTATCTCATTGGAATAGCCCTTTGGAGGGACGATTCCATTTTCAAAGAACATAATTTAAGCTCAGGGAGTTGAAATAAATTGCTTCAGGTCACGTGTCTAACAAATAGTGCTGCCAGGACCTGTGCCCGGGCCTGTTCCCCCACAACTTTGTGAGGTTCTGTGTTGTTTACTGATCCATTCTGCTGTGTGAGGCTCCACCTTGTGGACAGCTGCGAGTGGAGACTGAACTCGCAAGGACAGATGAAGCTTTACCAGCTGACGCCGATGTGTCTTCGTAACCTCAGAAATGATCAGCCTAAGTTTGTCAAATACACAGGGCCCCTCACTTTGATAGTAATTAGAGTGGAAGGACTGATGCTGAAGCTCCAATCCTTTGGCCACCTGATGAGAAGAGCTGACTCACTGGAAAAGACCCTGATGTAGGAAAGATTGAAGGCAGGAGGAGAAGGGGATGACTCAGGATGAGATGGCTGGATGGCATCACCGACTCGACATGAGCTTGAGCAATCTGCAGGAGATAGTAAAAGATTGGGAAGCCTAGCGTGCTGCAGTCCACGGGGTTTCAGAGTCTGGTACGACTTAGTAACTGAACAGCAATGAGTATCCCTTAAAGAGATGCTGTTTGGAGAGTAAAAGGGATTTGTTCTCCATGTGTCAGAACTAGGAGATCCAGTTAAGCTGCACATAATAAGCACATGGAGAGGGAAACAAACTTACTAGTAAATATTAGTATTACTGAATAGCAAACAGTGCAGTGTAAATGAAACGGTTTTTCTGTGACAAGCATATTGTATCATAAGTAATAAGGATAAACTTTTTGGTTTGAAAGTTAAAACTTATAAATGGTACAAATTATGATTAGGATTCAATTGCTGTGTGAATAGTTCACTTTGCACTGAGGTGGTCTTTAAAAGGGGTCTGTTAAAAAAAATTGCCTGCTTAAAGTCCCTCTTCTAAAGATGGAATTAAAATCCTGAATCAGAAGAAGATATGAAAAATAGTGAGTTTGGAGGTGACTTGAAACTTTGCTTTTTGACCTTGACAAAAATCACTTTGTCCCTCACATGCCCATGTATAAAGTTCAAATTAACACCAAACATAAATGCAAACAGTTGCTCTGGAAAGGGGATATTTATGGAGGCTTTTGTAAGTTCTTGTTCAAGAACTGTCATTGATCACTATTCCAGTTAAGTGGTCCGGGAGGAGGGCAAAATTTAACAGCAGGTATCCTGTGGCTAATCAGCCTTGGGTTTAATTCTGGCTCCTCCTCATGTCTGGCAAAAACCCCCTTTGCACCTGAATTTTCTCATCTGTAAAATGGGATCAATAATAGGTCCTATTCTGATTGCACTGCTGTGGGGATTAAATGAGATGCCTCATGTAAATCACCTAGGAGAATATGCCAGATAGAAAGTGCTCAATAGGTGGGAGCTGTTATTGTTAGTGATGCTTTTTACTTGTACTCTGCCTCATTTCAAGGAGAATTTGAGGTGGAAGATAATTTTGCTGTTCTTCATTATAACTAGATTACCATAGGCTATTTAAGCCCTATCTGAATGATGCTACTGTTAGTTAAGAACTGGTCTCGAATTCTGGCTTGAATCTTAAGGTTTTTTATTATTGCTGTTGGGTAGGATTTCAAACAAATCAAAACTGTAAAACAAATTATGACTGCGTATCTTGCAG
Seq C2 exon
AAGCACTAAAGGCAATGGAAAAAGTAGCCAGCCACATCAATGAGATGCAGAAGATATATGAAGATTATGGGACCGTATTTGACCAGCTTGTAGCAGAGCAGAGTGGAACAGAGAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010047:ENSBTAT00000013256:18
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(31.6=100)
A:
NA
C2:
PF0062115=RhoGEF=PD(7.4=35.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAAGGCTTTTCTGGATGCCCG
R:
TCCTTCTCTGTTCCACTCTGCT
Band lengths:
279-2121
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]