BtaINT0122957 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010291 | RBAK
Description
Bos taurus RB-associated KRAB zinc finger (RBAK), mRNA. [Source:RefSeq mRNA;Acc:NM_001191256]
Coordinates
chr25:39080280-39081805:+
Coord C1 exon
chr25:39080280-39080775
Coord A exon
chr25:39080776-39081747
Coord C2 exon
chr25:39081748-39081805
Length
972 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
AACTGCTTCCCTTCCTCTAGGTA
3' ss Score
10.82
Exon sequences
Seq C1 exon
CGCACGCATACTGCCTCGGCGCCTCTGTCGCTTCCTGTCGCTGTCCGGGTCACCACTCACCCTCGTTCCCAGGCTCTGGCCTCCGGCAGGCGGGCATTCCGGGGCCTGCGGGGCTGGAACGCCGTTCCGCCGTGCCGGCATCCAGCGGGCGCGGGCTGTGCGCGCGAGGATTCTCGCGGGCCGGGCAGAGGCTGGAGCGGAGACCCTCAAGCTCGAGCCCCGGAGCCCTCGGGCTGGGTCGGAGAGGCCGGACAGGTGGCGGCGGCGGCTAAGGAGCGGCGGGGCTCGGGCCCGATCGTCTGCTGCGCACTGAACTGTGAAGCCCTGGGAGGGACGTTGGCCTGAGGGGAGCTTGTCCCGTAGGCCCAAAGCCATCTCCTCGCCCGCAGCCGCCTCGGGAGGCGGAGAGGAAGGACTCGGAGAGAAGAGCGCGCCGAAGCAGCAGCCCCCGGCCAGAGCCTGGGGAGCCCGGGGCCGGTCAGCGAGTCCCGACGAG
Seq A exon
GTAGGTGGTGCGTCTGCGGCCTCCAGGCGGCTGTTGATCCTGCTCCCCTCGGAGAGCAGGGCTTGGGGAGCCCGCTCCGGACCCCACGAGAAAGCGACTGAGAAGATTTGACCGCTTTGCGGGGGTCGAGGGCCCGGGCTAGAGGGCAGGGCCGGCTGCTCCCAGCCGGAGATTGGGTTTCCCCAGGGCTTGTGAGTTCTGGGTGTCCTGGGGCAGTGGGGGCCCCAGGCTTGGCCCGGACGTGCCGCGTCCACGCCTCCCTCCATCCCCGGCGCCCTTCCTCTTTCTCTCGCCTTCTGGCGATCCTGCACGTGTCTCTCAAGACTCATCAGTACTTGGTCCTGTAATCTAAGCCTCTGGTGACACGCCACGCCCCCCTCCTCCGCGGATTCTGCCTGGTGGACTCGCACCGTGTAGTTAGTGCGTCGAGGCGTCTGTCCTGCTGCCTCAGTTGAGGGAGGAGGTGACTTGTCCCAGGTCACTGGGTCTGCAGGTGGGATCGTTAGCAAGATCGGACTCCAGGGGCAAGTGCTCTGTCCGACTGTATTGCAGCTTTCTTAATTAAAAACAAACAAAAACTCTACAGCGGTAACCAGGTTGAGTCAGCTCATTTATAATGCCATGCCTTCATGCGCATTTATCCTACTTTTGAGAGCTTCACATTCCCCATTTCCATGGAATGTTTGATTTTAATCAGTTTAAAGAGACAACGGAGTATTTAAACAGTGCCACAGGGAGGGGTTTTGGTGGTGTTTTGTTTGTTTCTTGCACTTTTTATTTAATGCTGGCAAACTGTTTGAAAAGTGAGTCTGTTTACACTCACCAGTGAGAGTAACCTGATGAAGTTACAGGGCTTCAGATGTGTGTTTCTCCTGTAGGACCCCTTTAGCCTCTTCTGAATGTTCCCAGGAGGTTCCTGCCTAGGTAGGCCAGGTTACTCACGGCTTCAAGTAACTGCTTCCCTTCCTCTAG
Seq C2 exon
GTACACCGGTTCACAGTCTAGCTTTTTCCAAGAGCAGCAGAACATGAATGAATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010291:ENSBTAT00000013588:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.500
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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:
CTGGAGCGGAGACCCTCAAG
R:
TCTGCTGCTCTTGGAAAAAGCT
Band lengths:
346-1318
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]