BtaINT0128612 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004510 | SARDH
Description
sarcosine dehydrogenase [Source:HGNC Symbol;Acc:HGNC:10536]
Coordinates
chr11:104606918-104609094:-
Coord C1 exon
chr11:104609011-104609094
Coord A exon
chr11:104607032-104609010
Coord C2 exon
chr11:104606918-104607031
Length
1979 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CACCCCCTCGCCTGCCGCAGGTG
3' ss Score
9.09
Exon sequences
Seq C1 exon
GAGCTCCGTGCACGAGGCTGCGTGTTCCAAGAGCGCCACGGCTGGGAGCGGCCGGGATGGTTCAGCGCCCAGGGCCCAGCTCCG
Seq A exon
GTGAGTAGCCCCGGCACACGCCCGGCCCTGCCCTCCAGCCCCGCCCACTGCCCACCCCCGCGTCCGCGCCCCTCGCTGTCTCTGGCGCTCGGGAGCCTGGTGAGCCGTGGGGTGGGAGGCTCGTCTGGCCTTTGGAGAAGTCGAGCCCCTGCTGGTTTGCCCGGTCCGCCTGTGACCTCGGGGCCCTGCCACGGACGTCACTCACCACCCACAGTGCCCGGCCTCCCACCGCCTTAGATGGGCCAGGGGCCCAGGAAAGCTGGTGCTCCACAGCGAGGAGGCCACACACGAGACTCCCCCGTTGACGGGAGAAATTAGAGCATCTTCTCATAATGTTGTTCATATATTTTTGGCGGCTGCAACTGTTAATGTGAGTAGGAGGATTGAGCACAAAATGACGCATTCCGTGTGTTAGTTTGTAAGTTGGGGTTTTCGCAGTGTCCTGGCCTCTGGGTGCCCTCTTGGGGGCTCCCAACTCCCACCCAGTTCCTCCCAGGGAACTGGGTTCTCAGAGGAAAGACTGGGAACCATCCTGCCTGTAAGGCCCTGGGTCTCTGGGGCAGGTGGTGTGATGCTTTAATACAACCAGGGGGATAGGAGTGGATCCAGGTTTTTACAAATGAAAAGCCCCTTCCTGCCGCTATACTTCAGCAGCCACCTTCCAAGTGCGACCTATCTCCCATCTCCATAGCAACCATGTCCCAAGGCAAGTTCCTGATGACCTCTGGGGTCAGCAGAGAGGAGAGGCCTGCACAGACCCCTCCCTGCCTCCAGCCTGGTGCCTGGAAGCCCCTCTTTCCCAGAACCCATGGGCAAGGGGAGGAGACCACAGCCAGAATCAGGAACACACCCTTGGTTCGTAGATGGGTGAGCTTTGCAGCCCCCTCCCACCCAGGAGCCACCCTGGGAGCCCAGGGCATTGGGCGGCCGGACATCCCCTACTCCCTGCTTCCTGGCCAGGCTGCAGCAGGCTGGGGTGTTCCTGCAGGGGCCTCAGGGGCCAGTGGGAGCCACTTGGCAGGCCAGGGAGATGACTTCCCTCAGAGACTCCTGTAAAGGCCTTCCCTGGACCAGGGCTCGGCCAGGAGCTGGGGGTGGGGACTGAGGGGGTACTTGGAGGAACAGAGAGGCCCAGTTCAGTCAAGACCTCACCCTCAGCTCTTACTGGTGAGAAGAGACAGGGCGGGGCTGGCCCTGCTGCGGGTGAGAGGTGCCGGGCTTGCTCACGCTTTTCCAGGAGTGGCCGTGGAGTTGGGAAGGAGGGGCTCCATCAGCAGGAACAGGACTAGAGTGGGGTGTGGGGTCTGGGCCTCCCTGAGAGCGGCTGGCCAAGCACAGGAGAGGCCAAGGCAAGAGGCGCTGAGTCCCAGCCTCTGGGGCCCACCGCCTTGCCTCAGGCCAGGCAGTCAGGGCTCTCCGGGGACTGGAGGCAAGCGTCAGTCTCTCTGCACCTTGGTTCCCCCACCTGTCCAGAGACTCCCTTCCTGAACGTGCAAGACCCTCTGAGCAGGGCCAGGCCGGAGCGGGACCGCATCCTGGATCGCCATGGCAACAGCATCCGGAATCCTTGCGGCAGCCACCCCACCCCTGACTCTGTCTCTCTCTTCTTCAGCAGGCTGACCCCTGGGCCTCATCGCAGCCCCTCGGCACTGAAGCGGAAGCCCTGGGGTGGCCCCTGGGGTCCCAGTCAACCCGCCCTGTTTGCTGTTCAGCCCCCTCTCTCCCCCTCTTTGCCTGCCCGAGCACACCCCATTTCTCCTCCGTCTCGGGCCCCGCCCTCCCACTGCTGCGGAGACCACAGTTCACTCGTGCGTGCTGCTGGCATGCCTGAGCCAGCCCCGTCCGCAACGCGCTGCCCCGTGATGGGGGTCGGGCCTGGCGAGGGCAGGGCCAAGATCCGTCTGTCCTGTGGGCCTCGGTCTCCAGGCGGCGTGTGCAGGGAGGAGGGCTGGGCTGTGACACCCCCTCGCCTGCCGCAG
Seq C2 exon
GTGCTCCCCTACGACTACTGCGGGGCGTACGGGCATCGGGCCCGCGAGGACTACGCCTACGGCCGGCTGCTGGGCCAGGAGTACACCTTCAGCTTCCCTCCGCACCACGATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004510:ENSBTAT00000005925:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GAGGCTGCGTGTTCCAAGAG
R:
ATCGTGGTGCGGAGGGAA
Band lengths:
182-2161
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development