BtaINT0008183 @ bosTau6
Intron Retention
Description
Bos taurus carbohydrate (N-acetylglucosamine 6-O) sulfotransferase 6 (CHST6), mRNA. [Source:RefSeq mRNA;Acc:NM_001192022]
Coordinates
chr18:2868963-2870945:-
Coord C1 exon
chr18:2870914-2870945
Coord A exon
chr18:2869039-2870913
Coord C2 exon
chr18:2868963-2869038
Length
1875 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
GCCCTCTCCTGCCTTCCCAGGCC
3' ss Score
9.81
Exon sequences
Seq C1 exon
TTAAAAAGACCTCTGGCATCCCTGGAGTGCAG
Seq A exon
GTAACAAGCATCTTGGCCTGGGGGTAAGATTCTCCTTACCAGGGGAGGGTGAGGCAAGCCTGGGCAGCTGTGTTTGGGCCCAAGTATCAGGGTCCTGTGTTCTGTAGGATCTCCCAGCACCAGGGGAGAGGCCAGCAGCCTATGATTAGAAAGTGCCAGAAACCTCGAAATAAGTCCTGGGTTGGGGTCCCTTGCTGTCTATCCAAACCTTGGGTCCTTTGTCTAAAAAATTGAGATCATAGGGAATTCCCTGGCGGTCCAGTGGTTGGGACTCCAAGCTTTCACTGCCAAGGGCCTGGGTTTGATCCCTGGTCAAGAAATTGGGAGCCCACAAGCCAAGTGCTGTGGCCAAAATAAATAAACTAAATAAAAAATTGAGATCATAATGCCCACCTCAGGAGCTGTTGAGTTAAATCACCTAGCTGTATATGTGTGCTTAGTTGTTAAGTCATATCCACAACCCCATGGACTGTAGCCCACCAGGCTCCTCTGTCCATGGGATTTTCCAGGCAAGAATACTGGAGTGGGCTGCCATTCCCTTCTCCAGGGCATCTTCCTGCCCTGGGATCGAACCTGCTTCTCTTGCATTGGCAGGTGGGTTCTTTACCACTAAGCCACCAGGGAAACCCCAAATCTCCTAGCCCTTGAGGTAATATATGTCAGTAAAGAGGAGTTAGAGTTTCCTCCCGCTCCTGTACCCTGTTCTCGGGAAGCACAACCTCAAGGAGAGGAGGTAACGTGTGCAGAGCAGGCGGGTGGCTGCTGTCCAGGTCTTCCAGGGGGGACCGAGCAGGAAACAAGAGCTGCTGGGCATCCTGCAGGCCCCTGATACGGGGGTGGGGGGGGGAGTCGAGAGGGGTCTGTGCTCACAGTCTAGACACCATCTGCCCTCAGTGGTGACGTAGCCAGTGAAGGCGTCTCCGTGGGGAGCAAGTGCTGTGAAAGGAAAGAGGAAACTTCCAGATCCTTCTTTTCCCAAGCAGCTCATCCTTGAGATCGCAGCAGGAAGAACAGTGCAAAGAGGAGAAAACTCTGGGACCTGGGGGTGTGGGAGCTGGGCTCGGTGTTCCTTTCATTCTGTAGGACCCTCTGTGGGACATTCTTTCTGAATTAGTTTGTATTGGAGCATAGTTGATTTACAATGTTGTGTTAGTTTTTGCTGTACAGCAAAATGAATCAATGATTACATCTATATCCACTCTTTTTTAGATTCTATTCCCATATAGGTCATTACAGAGTACTGTGCTATAGTAGGTCCTTATTAATTATCTCTTTTATATATAGTAGTGTGTATATGTCAATCTCAGTGCCCCAGTTTATCTTTCCCTCTGCACCCTGGGACTTTCTTAAGATCCACTAAAGGACTTAGGCATGTTTGGGGGCTGCAGGGGGCCTGGGAGATGCTGGGATTCCAAGCATAGGTGACCTCAGGGGTCTTCTCCGGGCAGAGACTCCCCATGGTTTCCTCTCAGACACAGCTGAACACTGCATCAGTAACATGGGGCATGTGAGGCGCTTTACCAAGCCCCTTTCCTCATAACATGTTTGCAGCATCATTCCTCTCGACAACCTTACGGTCAAATGTTATCATCCCCATTTTACAGAGGAGGAAACTTGAGTCTTGGAAAACTTAAGTCGTTTGTCCCAGGTCTCCCAGCTCCTGAGTGGCATCAGAGAGACTCAAACCCAGCAGGAGAGACTTTCATTTCACTTCCATCTGGGAAAATGTATCTAGCCACCTGCTCGTCCCTGCCCAGCTCCAGCCAGGAGAAGGGCAACTAGACTCCCACCCGAGGGGAACTTCTGTCAGTCTGGGAAGACAGAGCCCTCCCAGTGTCCAGGGCCATCTGACCCAGCCCTCTCCTGCCTTCCCAG
Seq C2 exon
GCCCTGAAAAACCTCCAGGCCTCTCCCATGGACCTGTGATCGAGGTGGGCAGCCCTCCCAGCAGCCAGGGACAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000040000:ENSBTAT00000056191:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development