BtaINT0128610 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004510 | SARDH
Description
sarcosine dehydrogenase [Source:HGNC Symbol;Acc:HGNC:10536]
Coordinates
chr11:104633374-104634907:-
Coord C1 exon
chr11:104634574-104634907
Coord A exon
chr11:104633553-104634573
Coord C2 exon
chr11:104633374-104633552
Length
1021 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGG
5' ss Score
6.91
3' ss Seq
CGCCCACCCGCTCCCGCCAGGCC
3' ss Score
8.25
Exon sequences
Seq C1 exon
ATGGCCTCGCTGAGCCGAGCCCTGCGTGGCATCGCGGCCACCCGTCCTCGCCAAAGCCCTGCCCGGGGCTGGGGGCTGAGACCCCTGGTGAGCGGGCCTGGCCCCACCTCTGAGAAGAGTGTGCCGTACCAGCGGACCTTGAAAGAGGCAGAGGACGCCTCGGCGGCGGCCCAGGGCCCAAGCCAGCCCCTGCCTGGCACAGCCAGCGTGGTGGTCATCGGTGGGGGCAGCCTGGGCTGCCAGACCCTCTACCATCTGGCCAAGCTGGGCGTGAGTGGCGCCGTGCTGCTGGAGCGGGAGCGGCTGACCTCCGGGACCACCTGGCACACGGCGG
Seq A exon
GTAGGGGTCGGGGTGCAGGTGGGGGCGGGAGGGCCTGGACCCACTGAGGTGCTAGCCCTGGGCTGACCAGTAGGAGGCCTGCTGGAGGCAGCTGAGGCAGAGGGAAGGCCATGGAGGACAGAGGCGGGCTCGTCCTGAAGGTGGCCCTGCGTGTCCCTGAGTCTCGGCAGAGCTGCGGTGGGAAGGAGGGAGCGGATGCTGACTGTGGACCCGGCCCAGGGGGCGGGGCAGAGCTGAGACCAGAACCAGGGGCCCAGGCAGCTGTCTGCTCAGAGTACAAGCCCTTTCTCCAGATGGAGCCCCCGGGATGAGGGGCATCCGCGGGGTGCAGAGGATGCACAGGGGAGGGACCGCCAGAGATGAGGCAGAGAGGCGTCCTCAGCGGGCACCACGGTCCTCAGCACCTGACCGGTGTGCATGTCCCCAGGGCAGCCAACCTTCTGCCTTAACCCTGCGTTAAGATTGGCAGCGTCTGTGGGGCAGTCACTCCCGCTTTGGCCGATACAAGCATGATGGCACCGAATGTGGAGCTGGGGAGAGGTTCAGACGGCACCCGTCACTGCCCGCATGGCCTGTCCCCCCACCGTCACTTCTCCCTGGGCCGGCCACTCCCCAGACCCCACTCAGAAGGGGTCCGCTCTGTGGGGGAACTTCAGTCGGTCCCGGGACCCCGTCACCACCTGCCCTGAGATCCTGGCACAGAGCCGTTTGGTGCCCCTTAATTTCACAGTGCAACAGTCCTGCCTGCCTCCCAGGGCCGCTTCACCCTGTGACCGGCTCTGCCCACAGCGGGTGCCCGATAAAGGGAGCCTTTGGTGTTGTCACTCTCTGAGCTGCCCAAGGGCCGTGTCCTGGAACTCAGCGTTGCCCCTGTCGTCTCCTGCTCATCGGCCTCTCGGGGCCCTCTCCGTGGCCTGCAGGGACGCTTCAGGCCCTCAGCCTGATATTCGGGAGCCCCGGCCTGCCAGAGGAAGGGGGTGCAGTGGGGCTGACGGCGTCCCCGCCCACCCGCTCCCGCCAG
Seq C2 exon
GCCTGCTGTGGCAGCTGCGGCCCAGTGACGTGGAGGTGGAGCTTCTGGCACACACGAGGCAAGTGGTGAGCCGCGAGCTGGAGGAGGAGACGGGGCTGCACACGGGCTGGATCCAGAACGGGGGCCTGTTCATCGCATCCAGCCAGCAGCGTCTGGATGAGTACAAGAGGCTCATGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004510:ENSBTAT00000005925:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.446 A=NA C2=0.017
Domain overlap (PFAM):
C1:
PF0126619=DAO=PU(11.9=38.4)
A:
NA
C2:
PF0126619=DAO=FE(16.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTACCAGCGGACCTTGAAAG
R:
CTGGCTGGATGCGATGAACAG
Band lengths:
356-1377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development