BtaINT0038430 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003721 | CHST1
Description
Bos taurus carbohydrate (keratan sulfate Gal-6) sulfotransferase 1 (CHST1), mRNA. [Source:RefSeq mRNA;Acc:NM_001083648]
Coordinates
chr15:76573748-76577430:-
Coord C1 exon
chr15:76577335-76577430
Coord A exon
chr15:76575890-76577334
Coord C2 exon
chr15:76573748-76575889
Length
1445 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CTGCCTGCCTTGGCCCCCAGACC
3' ss Score
9.6
Exon sequences
Seq C1 exon
GTCTGCTGGCCACGGGACTGCTGCACGGGCTGTGACTGCCAGGGAGGCCTGGAGACCCGGCAGCTGTGGACTGCCCAGCGCCGAACAGCCCCTTTG
Seq A exon
GTGAGTTGGTGGAGCCCTCCCTCGCCTTTGCCTTCCCCAGGGCGGGTCACTGAGCTGGCCTTTCTCGGCTGGGGGGGAGGCGGGGGGGCAACTTCCAGATGCTCAGGTTGGCCCCTACCCCGGGACCCCAGCTCACCCCCACTTTCCCTGCCCTCCCATTCCCCGCATTTCTTCCGTTCCTTGAGATGCCCCTTCTCTTCCACCCTTCTCTTCTCTCTGCCCGGCCTGGGTTCTCTGGGGCCACTGAGGAATCACAGTGGGGTCCCCGAGCTCACCCTGTGGGCTGAAGGGGGTGAGGGCCTAAGGGTGGAGGCCCTTGAGGACTGGCTGGGGGAGGGGTGCTGGAGGAACCAGTTCATCCAGCTAAACCAGTTCACTCACGTGCCCCATGACCAGGACCCCTTTCTCAGTAGTTGTGTCTGACTCTGCGACCCCACAGACTGTGGAGCCCACCGGGCTCCTCTGTCCATGGGATTCTATAGGCAAGAATACTGGAGTGGGTTGCCATTTCCTTCTCCAGGGGATCTTCCCCACCCAAGGACTGAACCTGTGTCTCTTGAGTCTCCTGCACTGGCAGGCGGATTCTCTACCAATAGCACCACCTGGGGGCCACCCCCTTCCTTAGGGGCCAGGAGCAAATCCTAGAGGCCACTGGGGCCTGGGAAGGGGTGTTTCTAAGCAGCCGCTGGACCCTGTCTGCTCTGGGCCACCTGCCTCTGAGGGAGTCCATGAGCCCCAAGAGTCCTCCACTGGAATAAGCTGGTCACCTGCATCTGTAAATTGGGTGGGGGGAGCAGGAAGGGCTTGACGCCATTGTCCACCTTCCCCAGCCTGGTGGCCAGAGGTTGCTAGCAGCCCACCCACTCAAGGCGTGCAGGGGTTCTTTTTGCACGGGGCCTTGGGTCAGGGGGCGGCATCTGACACGGACCCTTCTTCCTCCTGGGGGTGGGCAGAAGACAGAGGAAAGAGGACCACATGGGGAAGTGGGTGCCAGCTCATGGGAGTGGAAGAAGATGCAGGTGGCCCAGGAGATGCCAGCAGGGGTGGATAGGCAGAGACAGGGGAATGGCTTGAGGTGGGTGGGAGCTGGTCATTCCCCAGCTATGGGAGTTGAGGGAGTTAGGGTCTTGCCCGGTCAGGCCCCACTAAGGTACTCAGTTCTGATGGGAGGCCCCACAGTATTCTGTAGGTTAGACCCTGGGGTATGGGAATGGGTTTGTTCAGTCCCTAAGAACCCCCAGGAGTCCCCAGAGAATGGTAAAGTCTAGCGTAGGAGCCCCTTCAGTGCTCAGGTGTATTTGGGAGCACTAAGCCATGGAACTGGGGCCCCTCCCCTGAGGGCTGGAGACCCAGCTCCTCTCGGGGAGCAAGCCGGTGCCCCCCTCCGGCCGTCAGGGGCACCCAAGCCTGGCTGCTCCCTGACAGCTGCCTGCCTTGGCCCCCAG
Seq C2 exon
ACCTCACATGCTGGAGAAGCAGCCCCATGAAGGTGCCCAGCCATGCAATGTTCCTGGAAGGCCGTCCTCCTCCTTGCTCTGGCCTCCATCGCCATTCAATACACGGCCATCCGCACCTTCACGGCCAAGTCCTTCCACACCTGCCCAGGCCTGGCGGAGGCTGGGCTGGCCGAGCGGCTGTGCGAGGAGGGCCCCACGTTCGCCTATAACCTCTCGCGCAAGACCCACATCCTTATCCTGGCCACCACGCGCAGCGGCTCCTCCTTCGTGGGCCAGCTCTTCAACCAGCACCTGGACGTCTTCTACCTGTTTGAGCCCCTCTACCACGTGCAGAACACACTCATCCCCCGCTTCACCCAGGGCAAGAGCCCAGCCGATCGGCGGGTCATGCTGGGCGCCAGCCGGGACCTCCTGAGGAGCCTCTACGACTGCGATCTCTACTTCCTGGAGAACTACATCAAGCCGCCGCCCGTCAACCACACCACCGACAGGATCTTCCGCCGCGGGGCTAGCCGCGTGCTGTGCTCGCGGCCGGTGTGCGACGCCCCGGGCTCGGGGGACCTGGTGCTGGAGGAGGGGGACTGCGTGCGCAGGTGCGGCCTGCTGAACCTGACGGTGGCCGCCGAGGCCTGCCGCGAGCGCAGCCACGTGGCCATCAAGACGGTGCGCGTACCTGAGGTCAACGACCTGCGGGCCCTGGTGGAAGACCCCCGCCTAAACCTCAAGGTCATCCAGCTGGTCCGGGACCCCCGGGGCATCCTGGCCTCCCGCAGTGAGACCTTCCGCGACACGTACCGCCTCTGGCGGCTCTGGTACGGCACCGGGCGGAAGCCCTACAACCTGGACGTGACGCAGCTGACCACGGTGTGCGAGGACTTCTCCAACTCCGTGTCCACCGGCCTCATGCGGCCACCGTGGCTCAAGGGCAAGTACATGCTGGTGCGCTACGAGGACCTGGCCAGGAACCCCATGAAGAAGACCGAGGAGATCTACGGGTTCCTGGGCATCCCCCTGGACAGCCACGTGGCGCGCTGGATCCAGAACAACACGCGGGGAGACCCCACCTTGGGGAAGCACAAGTACGGCACGGTGCGAAACTCGGCGGCCACGGCCGAGAAGTGGCGCTTCCGCCTCTCCTACGACATCGTGGCCTTCGCCCAGAACGCCTGCCAGCGGGTGCTAGCGCAGCTGGGCTACAAGATGGCCAGGTCGGAGGAGGAGCTCAAGAACCCCTCCATCAGCCTGGTGGAGGAGCGGGACTTCCGCCCTTTCTCGTGACCGGGGCTCCGCGGGTGGGGGCAGGGGGCACAGGGTGTCGGTTTTGATAACATGGACCGTTTTTAACTGTTGCCTTATTTCCCCCTTCCCTCTCCACCCGTCTTTGGTGTCCTACCTGCCCCCTGTCCGCCCCCCTCCCCTTCCACCTGCCTCTCTTTGTCTCTGAAATTTGCACTATGTCTTGGACAGGAATCCCTGGGGCAGAGGGGGCGAAGTGGGGTCCAGCTCCCACCCCACCCCGTTCAGACACTCGAGTGTGTGTCCCTGGTGGATGGTGACAATGTTTACAAGCACCACACTTACACATTCACATGCGCACGCACGCACGCACACACACACACACACACACACACGGGCGCCTGAGAGGAGAGACACCCCAAACCATACAACTTCTGAGGTTTTTGAATGGACGAGTGGTCAGGGTATGGTAGTTTTTGCACTGTCTTACTTCAACAAGGTAAGAGGTTAAAAGCAAAAAGGCCACCTCTCTCTAATTTATGAATGGTGTTTATCCCTCCGCATCCTGCTTCTGCTCCCCAATACCTGCTGCCCCCCACTCCTTGGAGCAGAGAAAACTGCCCTTTCCTGCCCATCCTTGCCTGTCGGTGAGCAGGTTTTTACTGTGAGGTGAATGTGGACCTTGTTTATTTCTTCCAGTCTGTGGCAACGCTGTCTGTCTGTCTGTCTGAGTTTTGTGGCTGCCCCTGGACTAGTGATGGCTGATAAATATTATGGTTTTCTGATTGATCTTGGGGTCCATCTGTGATATCTCTTTGTGCCAAAAAAGAAAAAAAAAAGAGTGGTTCAGTTTGCTAAATGAACATTGAAATGCTTTATCTGTGTTTTCTGTAAATAAAAGAGTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003721:ENSBTAT00000004844:1
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:
PF0068522=Sulfotransfer_1=WD(100=78.9)
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:
CAGGGAGGCCTGGAGACC
R:
CAGGTGCTGGTTGAAGAGCTG
Band lengths:
351-1796
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development