RnoINT0150932 @ rn6
Intron Retention
Gene
ENSRNOG00000016728 | Tiam2
Description
T-cell lymphoma invasion and metastasis 2 [Source:RGD Symbol;Acc:2324148]
Coordinates
chr1:44422551-44423525:+
Coord C1 exon
chr1:44422551-44422676
Coord A exon
chr1:44422677-44423416
Coord C2 exon
chr1:44423417-44423525
Length
740 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
CCTTCTCTCCTCCCTTCTAGAAA
3' ss Score
11.79
Exon sequences
Seq C1 exon
ATGGAGTCACTTTTTGGGAGCTTGCCAGAGATGCTGGAATTTCAAAAGGTGTTCCTGGAGACTCTGGAGGATGGGATCTCTGCTTCCTCAGACTTTAGTGTCCTGGAAACCCCCTCACAGTTTCGG
Seq A exon
GTAAGTATTTTGAATTTGGCGTTAAAGCAAATGTAGGTGGGTAGGGTGTAAAGTTCTCCCCTCTGTAGGCGAATTCAGTGTTTGGTTGCACTGCCTTCCCGAGGGTGTGGAGAAGAGGCTTCTGGGGCGACTGTGTTCAGGGGTCAGCAGTCTGGATCGCTTGACTGCTCAGCAGAGCTACCTGACTTTCCAGAAAGGTACTGGAGAAACTTCCTTTGACGCAAGAACAGCTCCCCTGCACTGGGCACCTCTCTTAGGAGGTCTTGGGAAACTGGGCTGGAGAATGTGAATTTCAGATGGCTATCAGGCAAACTGTCCCTTGTAAAGGAGTCATTGTAAGGACCATGGCTAATGGGAATGACGTTCTTCCAGAGGTGAGAGGGAAAACAGTAGAAAGGAGGTTAGAAGCAGACAGTAGGAACGGTGATTCATCCCAACCATGGAGTAGTTCGCTCTGAGAGTCTCCATACCTCCACTCCTTAAACCAATGGTTCTCAACCAGTTGGTTGCGACCCCTTTGGGGACCTAATGACTCTTTCACAGGGGTTGCCTAAGACCATGGAAAATACCAGGTTGGGAACCATGCTTTAGACCATTTGTAGTGAAATCCAACAGATCCATCTAAAGGTGGTCCAGGGAAATGCCCAGCCTGTTCTCCACCTAGACTGACAGGACAGTTCCGACAGTGGGCAGAAGCACAGGGAGACAGGGCTGACTTGACCTTCTCTCCTCCCTTCTAG
Seq C2 exon
AAATTGCTGTTCTCTCTCGGAGGCTCTTTCCTCTACTACGCAGATCACTTTAAACTGTACAGTGGATTCTGCGCCAACCACATTAAAGTACAGAAGGTCCTAGAGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016728:ENSRNOT00000065386:18
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(21.6=100)
A:
NA
C2:
PF0062115=RhoGEF=FE(18.9=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:
GTCACTTTTTGGGAGCTTGCC
R:
CTCGCTCTAGGACCTTCTGTACT
Band lengths:
230-970
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]