BtaINT0128621 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004510 | SARDH
Description
sarcosine dehydrogenase [Source:HGNC Symbol;Acc:HGNC:10536]
Coordinates
chr11:104631841-104633552:-
Coord C1 exon
chr11:104633374-104633552
Coord A exon
chr11:104632021-104633373
Coord C2 exon
chr11:104631841-104632020
Length
1353 bp
Sequences
Splice sites
5' ss Seq
TCGGTGGGT
5' ss Score
6.9
3' ss Seq
TTTCCTCTGGGTCCCCCTAGTTG
3' ss Score
9.26
Exon sequences
Seq C1 exon
GCCTGCTGTGGCAGCTGCGGCCCAGTGACGTGGAGGTGGAGCTTCTGGCACACACGAGGCAAGTGGTGAGCCGCGAGCTGGAGGAGGAGACGGGGCTGCACACGGGCTGGATCCAGAACGGGGGCCTGTTCATCGCATCCAGCCAGCAGCGTCTGGATGAGTACAAGAGGCTCATGTCG
Seq A exon
GTGGGTGCGCCCCTGCGGGGAGGGGGGGGGGCAGTGTAGTGCAAGGGAGGAGCCCTGGCGCATGCGGGCTCGAGCCTCGGGCTGCCTCGGCTGGGCTGGGCCCCCTATGACAGGAGGCTTTGCCTCGGAGCCTCGGCATTCTCACCTTTGAAATGGGATCGTGTCAAGGAGCACAGTTCTGCTGAGCCTCGGAGACAGAAGAGGCCCAGTGCATGGGGATTGCCACCATGCGCGGTGCTCCCGGGGTCAGGCTGAAGGATGAAACTGCACAACCCAGGAGGCAAGGACCACTTCCCCCAGCTCTGCTGGAGACGCTTAGGGAACACCGTTGTTGGGGAGACAGCAGAGAAAGCCCTAGGCCGTGGAAGGCCCGCTGTTGGGGTGGAGTGTGGAGTGCTGGTTCTTCACCCAGAGCAGCCAGGGCTGGCCCCCACATTCCAGGGCATGGAAGGGACGGGTTGCTCCAGCGATGCATTGGTTATTGAGCACCAACTGTATACTGGCGAGCAAAACCGGCTGTGTGGGTCGCGGGGATGCAGTTTCGCGGGGACGCCGCGTTCCTCTAAGTGCCCCGGCGGAAGTAGCGGCAGCTGGCTTCCTCACAGCAGGGCGGGGGATCTCTGGGTGGTCTCGTTCTGCCTCCTCCCACCACCTCTTCCCCACGCTTACTCACTCATCAGCTGGGACGGGGCCCCCAAAGGTGACCCGTCAAATCTTTCAGCTCAAGTTCGGAACGAAGTCTCTGCCACCTCTCAGTCAGGATGCTCCGAGAGGGGATCTGATTGGCTCAGCTCATCTCTAGTTGGGCTGGAGATGGAAATGGCAACCCACTCCAGTATTCTTGCCTAGGAAATCCCATGGACAAAGTCTGAGCCTGGTGGGCAACAGTCCAAGGAGTCAGACACGACTTAGCCACTGAGCACATCTCTGGTTGGGCAGGTCCTGATGGGCGGATGCCTGCGGACACTTGATTGGCTGCCCGTTGACCAATGAGATGCGTCAGGGGTGTGGTCTGTCATTCAGCTGGATCCTGGGACAGAGGACCCTCTGGTCTCTGGGGAGCTGGTCTGACCAGCACTCCTGGTTCAAGCCCCAAATATCAGACCTGTGGGGATTATTTTTTTACACAGTAAGCCCTTATGTGCCTGGGCCCCAGAGACTGCTTCTGAGCACTGCACGGGTTCCTTACTCTTCTCGGAGCTGGCCCAAGGGACAGGAGCTTCCCCGGGCGCAGCTCAGGGTTCCTGGGGGTGCTAGGGTCAAAACTGACCCTTGGAGGCCCAGACGGGGAGGCTAGTGGCTGGAAGGATCTGCCCCCAGGCCCCAGGCTCACTTTCCTCTGGGTCCCCCTAG
Seq C2 exon
TTGGGCAGGGTCTATGGCATCGAGTCCCACGTGCTGAGCCCCGGGGAAACCAAGGCTTTGTATCCGCTGATGAACGTGGAGGACCTCTACGGGACCCTGTACGTGCCGCACGACGGTACCATGGACCCCGCCGGCACCTGCACCAGCCTCGCCCGGGCTGCCACCACCCGGGGGGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004510:ENSBTAT00000005925:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.100
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(16.4=100)
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:
CGGCCCAGTGACGTGGAG
R:
GGCGGGGTCCATGGTACC
Band lengths:
294-1647
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development