BtaINT0128625 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004510 | SARDH
Description
sarcosine dehydrogenase [Source:HGNC Symbol;Acc:HGNC:10536]
Coordinates
chr11:104620182-104621627:-
Coord C1 exon
chr11:104621523-104621627
Coord A exon
chr11:104620312-104621522
Coord C2 exon
chr11:104620182-104620311
Length
1211 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
GCTTCCCGCCATGTCCCCAGGTG
3' ss Score
9.04
Exon sequences
Seq C1 exon
AACATGCCCAACGTCCGCGACCATGATGCCTCTGTCTACCTCCGGCTGCAGGGGGACGCCTTGTCTGTGGGCGGCTACGAGACCAACCCCATCTTCTGCGAGGAG
Seq A exon
GTGAGACACCAGGGCTCGAGGGGGGGTGTGGGGCTGCATCTCAGAGCAGAGACGCCCTCTTCCGGAGACCCCCGTCCTGGAGCTCTCTCCCCACCTGAGAAGTGGCAGGTCCCCCATCCCATAAAGTTGAACCCACATTTCTCCAGCCCTTAAGAACCTGGTATGCGGGCATATACAGACCCGGGGCAGGCGGAGGGCTGGCCTCAAAGCAGCAGTAGTCAGAGGCTACAAGCTATGCAGTGGGGAATCTAGTAGATGATGAAGGCATGTAAGCCCTCCGCCCATCAGCAAAGCATCCCTCACCCTCCCCTGCCTGCTGTGGCTCTAGCTGTGTCTCCCTCCGGCCTGGACTGCTCTCCTGGCAGCTTCTGCAGGAAGCTTCATGCAGGCCCAGCTTCATGCAGGCCCAGCGCCCCCCTCAGCACCCTCAGCCACTTCAACCACATATGGGCCACCCCGGCTCTCGTATTCATGTGTTTAGTCTTCAAATTGAACAATAAAATGACTCCTTTCGGCCAGATACTGTTTTACTTTGGGGAGAAAGAGGAAGACCAAGATAAAAGTCTCTGTGCCCGGAGGCCTGTATTCTGGTGGGGAGACACACAATAAATAAACAAAGAAGTCACGTAATTTGGGATGGTGATCTGAACCCTGAGTGAAGTTAACAGGCTGAGGGTAAGCCTAGTGAGACTGGAGTGGAAGGATGTCCTTCAGACTGCGGTCAGGCATGGCTGAATGGGGGTCTGACATCTGAGTGGACCCTGCAGAGGGAGGGTGGGCAGCAGCTCGCCCATGGGGTGAGGGCCCTGTGGTCAGACCAAGCTTGGTGTCCTTGAAGAACCGAAGGAAGGTCAGCGTGGCTGTGGGTCCATGGTGGATGTGGGCAGGGCCTGCTTATGCAGGGTTTTATGAGACACAGAGTCACAGGGGGTCTTGGGGGGCTCGAGGGCAAGAAAGGGCCTGATCTGACTTGGGCGAATGGGTTGAAGGAGGGCAGCAAGCAGGAGGCCATTGCAACAGTCCAGGGCAGAGCAGGTGGGCCTGGGTCCAGGCAGGAAGGGGAGCAGACAGGCCCTCTGGGGGGTGGAGGGGGGAGACAAACAGGGGACCGTCTAGACCATCACCACCCGATGGAGACGCTGGCCAGGGCCTGCCCGGCTCCGCACTCCAGGGGCCAGCCGGCACAGGGCAGCTTCCCGCCATGTCCCCAG
Seq C2 exon
GTGTCAGATGAGTTTGCCTTCGGCCTCTTCGACCTGGACTGGGATGTGTTCACCCAGCATATTGAAGGTGCCATCAACCGGGTCCCCGTGCTGGAGAAAACTGGGATTAAGTCCACAGTCTGCGGCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004510:ENSBTAT00000005925:6
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=0.023
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(9.4=100)
A:
NA
C2:
PF0126619=DAO=FE(11.9=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:
AACATGCCCAACGTCCGC
R:
TAATCCCAGTTTTCTCCAGCACG
Band lengths:
214-1425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development