GgaINT0125533 @ galGal4
Intron Retention
Gene
ENSGALG00000002855 | SARDH
Description
sarcosine dehydrogenase [Source:HGNC Symbol;Acc:HGNC:10536]
Coordinates
chr17:7036824-7038908:-
Coord C1 exon
chr17:7038818-7038908
Coord A exon
chr17:7036966-7038817
Coord C2 exon
chr17:7036824-7036965
Length
1852 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGG
5' ss Score
3.33
3' ss Seq
CCCCTTTCCCTGCCCTTCAGGAG
3' ss Score
10.35
Exon sequences
Seq C1 exon
GGATGATGCTGGGAGGAGGCTGTGGGAAGGAGCTGGCCCATTGGATCATCCACGGCCGGCCGGAGAAGGATATGTATGGCTACGACATCAG
Seq A exon
GCAAGGCTGTGCTGGCACCCAATGGGGAGCACGGGGATGGGTGTCAAAATCAGGTGTCTAGCAGTGTCTGTGCCACAGCCCCTGTCCCCTGAGAAGCTGGAATCAATTAGGCCCATGGCTTTAATGAATTCACACGTGGGATTTATCTCATTTGCCTCATTCCGCTTCTACACAAACCGCTTCCATCAGACGCGAGGAGATTGCAGTGATGAGGAAGGACAGGGTAATTATGTTTGGGTTGTGTTGTTGTTCAATTAGTGCTGTGCCTAATCCTCTAAGTTAATAATCGGGGGTGATGATTGCAACTGGAGAAAGATTAGCGTTTCCTCTCTGCAGCGCTAGACGGGCCGGGAGATTTGGGCTGTGCAGATGTTGGCTCTGTAATTGCTTTTGACTTGTTCAATCGTGTCTGATTGGGTTTGGGCTTTCTTGCAGGGCTGCTTGTGACAGCAACAAGCTTGTCAGGGATAGATCTGTGAAAATCACATTGCTTTGATGGGAACAGTGGTAAACAGACCATGGAGCCAGCATGGGAGCTGCTGCTAACGCATAGACTCACAGAATGGTTGGAGTTGGAAGGGACCCTTAAAGGCCATCTGGTCCCACTCCCTGCAGTGATTAAGGACACCCACAGGGTGCTCAGAGCCCCTCCAACCTGACCTTGGCTGTCTGCAAGGATGGGGCACCACTGCCCCTCTGGGCAACCCGTGCCGATGCCTCACCGCCCCTATTGTAAAACACTTTTTGCTCATATCCAACCTACACTGGTTTGCAAAGCAGGCAGCAGCCCCATGCCCCCATGTCCCCACAACAGCAATGGTGCTCTGCCAGCTGCTGAGCCATTGTGCATCGTGGCCATGCACAGCCCCAGCTCCTTGGGGTGCTCCATCCTTCTGCTGCTCTGCCTTTCCTGTGCTTGTCAAGCTGATCTCAGTCCTGTTTTGTTGCTTATTTATTTATTTTTTTTAAATTATGATTACCGAGCTCCTCTTTAAATAACTCCCATTCCTGCACATTTAAATATTTATCCTCTCAAATCACTCGCTGGTAAATATTTCATCTGGCAGCTGTTGCTCCTCTCCCTGCTGTCAAAAAGCAGTGCGGTGGTGGTGGCAGGGCTGGGGCCATCCCCTGCCATGTGTCCCCTGCCATGTGTCCCCTGCCACCTGTCACATGTGGGCAGAGTGGGGAAGAAAGCCAAAAATACCATTCTGAAAGGTCCTATACGTTACGTTTTGCCTTGCCTTCTGCCTGCTGGGGGCTCTGCAGAGCTGGGGGCTCTGGGCAATGGGGACAAGAGAGATGCCACCAGCCAAGAGGTGCCAGTCCAGGAATCCCAGGGCTATGGCACAGGGTATGGCAACAACACCCCGAGCACGTGCTGAAGTGGCACATTCCTTCAAGGAGATCTTCCTGTTGGAAAGAGGAAAGCATGTCAAACAAATTTAAAATGCTTTGGGTTTTATTTATATTTCAGTCTAGGGAGAATTGGATGAAAAATGCGAGGAATGTTCGCGGCTCTCTCACTCTTCTAGCATTTCAGGCTGGGTTGTGCAAGAAGAGCTCTCTGAGGTTTGCCCAGTGCTGAATCAGGGCAGAATTAACCTCGATTTCTCTCGTTTCTTCTTTTTCCCCAGCAGGGTTGTATCCTGCTCTGGTAAATCTGACAGAGCTCAGGGATGGCAGAGCCATGGGGATGAGCGTTTTGATGGGCAAGAGATATGATTTGGGTTTCTCTGTTCTCCTCCCTACAAAATGGAGTAGAAATCACGACTTTACACCTGCCAGCACCTCCCATTGCGAGGCTGTGCCCGGGGGTCCGATGCCCACCACCCCTTTCCCTGCCCTTCAG
Seq C2 exon
GAGGTTCCACTGCTCCCTCACCGACAACAACCGCTGGATCCGGGAGCGGAGCCACGAGTCCTACGCCAAGAACTACTCGGTCGTCTTCCCCCACGATGAGCCGCTGGCGGGGCGCAACATGAGGAAGGACCCTCTGCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002855:ENSGALT00000004499:10
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=0.042
Domain overlap (PFAM):
C1:
PF0126619=DAO=PD(3.9=45.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGATGCTGGGAGGAGGCT
R:
GGTGCAGAGGGTCCTTCCT
Band lengths:
230-2082
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]