BtaINT0007083 @ bosTau6
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MNP3]
Coordinates
chr18:57640179-57641835:+
Coord C1 exon
chr18:57640179-57640247
Coord A exon
chr18:57640248-57641708
Coord C2 exon
chr18:57641709-57641835
Length
1461 bp
Sequences
Splice sites
5' ss Seq
CATATTTAT
5' ss Score
-20.12
3' ss Seq
TCATGTCCTTTGTATTTCAGGGA
3' ss Score
9.85
Exon sequences
Seq C1 exon
ATGTTAAATTTTTTTTCTTGTTTTGGTATTCTCCCCAGTTATGTAAAGTTCTTTTTAAAAAATACACAT
Seq A exon
ATTTATGTGTTTGGCTGAGTTGTGTCTTGTTTACAGCCTGCAGAATCTTGGAGCCATGTGGGAGACTGTTGCAGCAGGCAAACTTTAGCTGTGGCGTGTGGGATCTAGTTCTCTAACAAGGGACTGAACCCAGCCCCCTGACTTGGGAGCTTGGACTACCAGGGAAGACCCTATAAAAACTTGTATAAACTTTCTTTAGTGTTGTCTCTGTGTATTTGTGTTTTACTAGTTGAATTTTAGTTCACATAAACTGAAGCAAAATTCAAAATCTGTCATTTAAGCAATGGTTGACAAAATATTTGCAAAAAGGTGGAACAACAATGTTGTTGATTTTATATTATTTATGTGGTGCATTCAAGACTCTGTAAAAACTGTTAGAAAGACATATACTACTACTACTACTAAGTCGCTTCAGTCGTGTCCGACTCTGTGCGACCCCATAGACGGCAGCCCACCAGGCTCTCCCGTCCCCGGGATTCTCCAGGCAAGAACACTGGAGTGGGTTGCCATTTCCTTCTCCAATGCATGAAAGTGAAAAGTCAAAGTGAAGTCGCTCAGTTGTGTCTGACCCTTCGCGACCCCATGGACTGCAGCCCACCAGGCTCCTCTGTCCATGGGATTTTCCAGGCAAGAGTACTGGAGTGGGGTGCCATTGCCTTCTCCAAGAAAGACATATAGTATATACTAAATAGTTCAAAAGATTATTGCTGCTATGGGTACTATTCTATCAGACCCATCAATTTTGAAAAACACTTAAAATTCAAAGTTAAGTATAAATTCTTACCTTACTAGTCTACTTCTTTGCTATTCAGAATGGTCATTTATGTATCAGAATTTTCAACACTGCTACTTAAAATAGGCTTGTTAAAAATGTGGCACATTGGCCCCACTCCAGAACTCTTAGATCAGAGCATGCTTTTTTAAAATATTTCCTGTCTCCTTGATAAAGGCCTTCCCCGGTGGCTCAGATGGTGAAGAGTCTGCCTGCAATGTGGGAGACCTGGGTGCGATCCCTTGGTGGGGAAGATTCCCCTGGAAAAGGAAATGGCAACTCACTCCAGTATTCTTGCCTGAAAAATCCCATGGACACAGAAGCCTGGCGTACTACAGTCCATGGGGTCAGAAAGAATCAGACATGACTGAGTGACTAACATACTTTCCCTGATAGACAGTTTATCCTGTGTCACAGGAGTACTCTCAAAAATAGATAGATCAGTGTGGTGTGATTGTTTTATAGTTTCTCTTCCAGATCAGAATAGTTTCTATAGGGGTCTGTGGATCATATCTCATTCTCCTTTCCTGGGTTAGAAATACAGTGGAAAATACGACTGTATAAAAATTATATTCTTGTGTAACACCAGACAGTCTCCTAAATCAAAACCATTTCTCTTGCTGGTTTCATCTTGGGTCACATTAGGAAGTCTTCCCATGTCCACATGGCTCATGTCCTTTGTATTTCAG
Seq C2 exon
GGACGGCTGACATTCCAGGATGTGGCCATAGACTTCACTCAAGAGGAGTGGGAGTGCCTGGACCTCGGTCAGCGGGAATTATACAAGGACGTGATGTTAGAGAACTACGGGAACCTGGCCTCCTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000037699:ENSBTAT00000022417:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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:
TTCTTGTTTTGGTATTCTCCCCAGT
R:
CCAAGGAGGCCAGGTTCCC
Band lengths:
182-1643
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development