BtaINT0034646 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002135 | CD69
Description
Bos taurus CD69 molecule (CD69), mRNA. [Source:RefSeq mRNA;Acc:NM_174014]
Coordinates
chr5:100744612-100745296:+
Coord C1 exon
chr5:100744612-100744811
Coord A exon
chr5:100744812-100745192
Coord C2 exon
chr5:100745193-100745296
Length
381 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TCCTTTGTTCTTCCTTCAAGAAC
3' ss Score
8.14
Exon sequences
Seq C1 exon
TGGGCCAGTACAACTGTCCAGGACAATATGCATCATCAGCGCCACCAAACACCCATGTGTTTCCATGCTCAGATGATTGGATTGGACACAAGGGGAAATACTACCTTATTTCCAAGAAAACAAAGAACTGGACCTTGGCCCAAAACTTTTGCTCCAAACATGGTGCCACGCTTGCTGTCATTGATTCTAAAGAGGACATG
Seq A exon
GTAAGATGGCATTCAAAAAGAATTCCATAAAGTGTTGGTATTCTTTTTTATTTTATATAGCTAATCCGTGATTTTCTTCTGTTTCCTTCTAAGTGTAGATATTCTGTCTGTCTCTGACCCGGGAAAACTTAGTCACAAGAAACCACATGATCAGTCTAAGGTCCAAATGAGAGTCCAGTGTAGTCTTTAAGTGTGATGTGTTTAGCTTCAAAGATCAGAAATCCAAATGAGCTGAACCCACATCGCACTATTAATCATTAGTTAATACAAATGATCAGCTGAGCTACAATGCTTACTACTTGCAGATTTGAAAAACAGAATGTATTACATACATACCAAGAGGGGTGGTTTAACATACACTTCCTTTGTTCTTCCTTCAAG
Seq C2 exon
AACTTTTTAAAACAACATGTGGGTAGAGCTGAACACTGGATCGGGCTGAAAAATGAAGCTGGCCAGACGTGGAAATGGTCAAATGGCCAAGAATTTAACAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002135:ENSBTAT00000002767:3
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:
PF0005916=Lectin_C=PU(28.4=40.3)
A:
NA
C2:
PF0005916=Lectin_C=FE(35.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGCCAGTACAACTGTCCAG
R:
GTTGTTAAATTCTTGGCCATTTGACC
Band lengths:
302-683
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]