Special

BtaINT0148126 @ bosTau6

Intron Retention

Gene
Description
T-cell lymphoma invasion and metastasis 2 [Source:HGNC Symbol;Acc:HGNC:11806]
Coordinates
chr9:93237887-93238988:+
Coord C1 exon
chr9:93237887-93237992
Coord A exon
chr9:93237993-93238900
Coord C2 exon
chr9:93238901-93238988
Length
908 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CCTGGTTTCTTTTTACACAGGGA
3' ss Score
8.06
Exon sequences
Seq C1 exon
CCCTCAAATTCCCGGCCTGCACACAGCAATGCTGACCTGGATCCGTTTAAGTTCCGCTGGTTGATCCCCATATCCGCGCTTCAAGTCAGACTGGGAAATACAGCAG
Seq A exon
GTAATGGTTGCATGTTGTACAAATGCCAGAAAAAAAAGACATCTTCAGGGAATTTTCAAACTATGGAATGAAAAAGTAGGAGGAAAGAACCTGGGGATAATTTCTGGTATTTTACAGGCAAGGAAAATGAGGACGAGAGAGTGTTGTGATGTCTCTTTACAGGCTTTGGAGGAAGTAAATGCTAGAGGATGACTTTTCTTTGCTAAATACTTCTCTTCATTGTTTTCAACATTTTCCTAATATCCTAATATCTAACATTTCTAGTTATTCTAATAATTTTAGGGTAGTATCTATCCCTAAAATTTGTTAAAGAAACACAGGTCCACAAATTTTTACAAAATTTGAAATACCAGAAAATTCCTTAAGATTCAGCAGTATTACAAGTGATACAGAAAAAAATTTTCCATGCAAAATGTTCAGAGATCCTTCTAGAATAACCCTGTTCCGGTGCCAGTGCCACTGGTGATGGAAAAGACCACCAGGCTGAGGCCCACGGTGACGGTATGGGTCCCTGTTCGGTTTTTGCAGGAAGTACTCACGTTTCCGGAACCATGACTGAGTGTGGTGCTGGCTGCCTTTACCTAAAGTGCCTGAGCACACTCCTTCCAAGGGATGAGGCTGAAAAATGGGGTTCACTTACCTCTTTCCCAGAGATGGGATCCAGAGGTAGGGCAGAAGCACCAAGGTGGATGGGAAATGTCAGCACGAAATGTACAAAAAGTAACTAAAACATATTTAACTTTTTTAACTATTGTGGAAGTCATACACAGAATTGAGCCCCAGAAGAAAATGAGGAGAGTCAGAATTGGGAATACTGAACTCTTTAGATTGTGGGTTTAAAGTTTCATGGGTGTCCTTTATCACAGCATCTTTGGCAGAGTTGCAGCCCCTGGTTTCTTTTTACACAG
Seq C2 exon
GGACAGAAAATAATTCCTTATGGGAGCTGATCCACACCAAGTCAGAAATAGAAGGACGGCCAGAGACCATCTTTCAGTTGTGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010047:ENSBTAT00000013256:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.111 A=NA C2=0.000
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
NO


Main Inclusion Isoform:
NA


Main Skipping Isoform:


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:
CCCTCAAATTCCCGGCCTG
R:
AGCACAACTGAAAGATGGTCTCTG
Band lengths:
190-1098
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]