Special

BtaINT0148119 @ bosTau6

Intron Retention

Gene
Description
T-cell lymphoma invasion and metastasis 2 [Source:HGNC Symbol;Acc:HGNC:11806]
Coordinates
chr9:93228375-93229679:+
Coord C1 exon
chr9:93228375-93228500
Coord A exon
chr9:93228501-93229570
Coord C2 exon
chr9:93229571-93229679
Length
1070 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
AACTTTCCCTCTCTTTCTAGAAA
3' ss Score
10.99
Exon sequences
Seq C1 exon
ATGGAGTCACTTTTTGGAAGCTTGCCAGAGATGCTTGAATTTCAAAAGGTGTTTCTCGAGACCCTGGAGGATGGGATTTCAGCGTCGTCTGACTTTAACATACTTGAAACCCCCTCGCAGTTCAGA
Seq A exon
GTAAGTATTGTAGATGTAGGTTTAAAGCAAATAGAGGTGGGTACGGTGCAGAGTTCTCCCCTGGAAGAGAAAGCGGTGTCCCTTGACTGTTGAAAAGATAAGTTCTGTGTTGCCATTCCTCTGGCAGGTGGCAAAAAAAGGCTCTGCTTTTCCCTCGAGTAAATGCTCTGGGAATCAGGTGTCTGGGCAGTCCAGCTTTTATGGAGTCTGCCTGCTGTTGACAAGTCCGGGCTCCCTATTCAGCTCTGCCCAAGGCTCTGCAGGGCAAGTGCTGCTGAGGAAAGAGCACCTCCTGCATCTGATTCTGCATCTCTGTGGTCATGTGACTTTGGGAGGAGAGCATAGGTTTTCGCTTGTTGCGAGAGAGCATCCTTTTCTATGGAGCCCTGTCTCCAAGCAGGCATTGGTGACTGGCAAGAGGACTCCCCTGTGGCTCAGACGGTGAAGAGTCTGCCTGCGATGCAGGAGACCCAGGTTTGATCCCTAGGTCGGGAAGATCCTCTGGAGGAGGAAATGGCAATCCACTCCAGTATTCTTGCCTGGAAAATCCCACAGACGGAGGAGCCTGGGGGGTTATAGTCAGTCCATGGGGTCACAAAAAGTTGGACATGACTGGAGCCACTTCATTTTTTTTTCCATGAGGTCCTTCTAGGGAGGGAAAGGCAGAAGACAGTAGAAAGGGACTAAGGAAATACACGGCGAGCATCATTTGTCCTAAGTAAGGCAGAGCTGGCTTTATTAATGAGCCTCTCAGATTATTATATCCTGTCATGTCGGATGTATTTTTTTAGATAGAACTTTCTTTCTTGTCCTTGCCTGCACACTGTGTCAAGAGGCTCTGCTGCCAGAAACTTTTCAGTCAGACTGAAGATCTACTAGAGGCATGCCTGGGCTGTCGTCCATCAGCTGGGCAAATGGCGCTCCCTGGCTTCAGTCAATGCCTTCCTGAAGCACAGTGCCCTGGTGTCTGAAAGACGAATACCGTGGAGACAGCAAAGCGGTCAGATGCCAAGCTGAGCCAGCAGACATCGAATGAACCACGTCTGATGTAACTTTCCCTCTCTTTCTAG
Seq C2 exon
AAACTGCTGTTTTCCCTCGGAGGCTCTTTCCTTTATTATGCGGACCACTTTAAACTGTATAGCGGATTCTGTGCTAATCATATTAAAGTACAGAAGGTTCTAGAGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010047:ENSBTAT00000013256:16
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


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GTCACTTTTTGGAAGCTTGCCA
R:
CTCGCTCTAGAACCTTCTGTACT
Band lengths:
230-1300
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]