RnoINT0150911 @ rn6
Intron Retention
Gene
ENSRNOG00000021569 | Tiam1
Description
T-cell lymphoma invasion and metastasis 1 [Source:RGD Symbol;Acc:1307455]
Coordinates
chr11:29957421-29958729:-
Coord C1 exon
chr11:29958550-29958729
Coord A exon
chr11:29957490-29958549
Coord C2 exon
chr11:29957421-29957489
Length
1060 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
AGTGTGCTTCCAACTTGTAGGAC
3' ss Score
7.79
Exon sequences
Seq C1 exon
AGCACAGAACAGGTCACAGCGTTTTGCCGGAGTCTGCACGAGATGAGCCCCTCTGACTCGAGCCCGTCCCCTCAGGATGCCACGAGCCCTCAGCTGGCAACCACACGACAGCTATCGGACGCAGATAAACTGCGCAAGGTGATCTGTGAGCTCCTAGAGACCGAACGCACCTATGTGAAG
Seq A exon
GTACGTCTGCCTCGGGGGTCCCCCAGCCTCCCCAACCTCCAAACCCCTCAACTCCCCAGCCTCAAGGCCTCCCCTGCCTTCTCTTCAGGAAAGAGTGAAGTGGGTCACTGCCCGGGTGTAACCTACACACAGAGACACACACACACACACAAACACACAGACACACACACAGACACACAGACACACATAGACACACACACACACACACCACACACAGACACACACACACAGACACACAGACACACACACACACCACACACAGACACACACACACACACCACACACAGACACACACACACAGACACACAGACACACACACACACACACACACACACACACACACACACACTGAATTTAGTTTCTTTTAAAATGGAGGATTCTAGTTGATGAGAATTTGTAAGAAAACTTTGTAACTGATCATAAAGTTTCTGAGCACTCATGAAGATGATCTGATTTAAGTCTGTTTTTTTTTTTTATAGCATATTGTAAGTCTAGATGGAAGGGTCACATCTGCTTCCTGTGTGTTACTAATTGTTCTGTTCCTTCCCCCGTCGACAGCAGTGCTGATCTGGTTGATTTTTGTTTTTCTAACACAGGGTTTCACCCCGGAGCCCAAACTGGCCCTGAATTAAAAATAATTCTGCTTCAGCCTCCCACATACTAGGATCGCAGACCTACGCTGCCAGGACTGGCCGTCCGCTTTAAACTGCGTATATTTTAGTCTAAACAAGGCTAACTATGATGAGTCTAGCATACTGTGACCCACAGGCCATAGCCAGTCTTGCTGCCTGTTTTTGCAAATAAAGTTTTATTGGGGCACAGTCCTGTCCGTTTTGTATGTAGCTGCTTAGCTGCCCTCAGAGTACAACGTGAGTTTAAGAATTGATTTCAGAAGTGCCATGGGGTCTGCAGAGTCTGTGGTACTTGTAGAAGAAGCCTGCTTCTTCCTGTGGTAATGGGCTTTCATCATGGGCTCCTCAGAATCCAGAACACAGCTTGTCTTTTCATAGATTCCTCAAAGACTTTAGGTATGCTAACAAAGTGTGCTTCCAACTTGTAG
Seq C2 exon
GACTTAAACTGCCTCATGGAGAGATACCTGAAGCCCCTTCAGAAGGAGACCTTTCTCACCCAGGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021569:ENSRNOT00000046486:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.617 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062115=RhoGEF=PU(6.8=21.7)
A:
NA
C2:
PF0062115=RhoGEF=FE(11.6=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:
CACAGAACAGGTCACAGCGTT
R:
TCATCCTGGGTGAGAAAGGTCT
Band lengths:
246-1306
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]