RnoINT0130697 @ rn6
Intron Retention
Gene
ENSRNOG00000006916 | Sardh
Description
sarcosine dehydrogenase [Source:RGD Symbol;Acc:621125]
Coordinates
chr3:5780312-5782502:-
Coord C1 exon
chr3:5782412-5782502
Coord A exon
chr3:5780454-5782411
Coord C2 exon
chr3:5780312-5780453
Length
1958 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
CCATCCCCTTCTCGTGGCAGGCG
3' ss Score
8.45
Exon sequences
Seq C1 exon
GCATGATGTTGGGTGGTGGCTGTGGACAGGAGCTGGCCCATTGGATTGTGCATGGGCGCCCAGAGAAGGACATGTACAGCTATGACATCAG
Seq A exon
GCAAGTGTGGTGGCTGGGTGGGGAGAGCAAGACAAAGGGATGAAGCCGGTTTTCGAAGGAACCTTCCTTGATATCCAGATGACCTCTTGGAAGTGGATGCATCAAGGGTGGAAGGGGAGAAGGCAGTGGTTGGTAGACGTCTTGGAGGAACACCAGGGTTGGGCAGGCTACAGCCTTTGTGGTGTCCAGGATCTCTTAGCCTAGATCCTACCTGACCCACTATTCCCATCAATAGGATCCCAACATTCTGAGCCACAGATGGGGAGACAGAGGCTAGGGAGTGGGCCCAGCTAGGATCACTGTTAGTGTGTAGGACCAGGAGCTGAGCTGAGACTGGTGGTTCTTCCTTCAATCCAAGGCCTGACATGAGTCAGACTCAACACCGGGCAGCCTCTGCCCTGTGGTGCAGGGCAGTCAGCATGGACAGGCTGGAATGGGTACAGAGAGTGCCTTGGGTCTGTGGGGAAGTTCTGGGCACTGAACCATGTAGCTTGGGCCAGATGCTGATGGGAGGAGCCTGAAGGCATCCTAGGGCCCCATGGCCTGCTGCGAGGGCTCTGAGGCAAGAAGCAGGAGACATCCTGTTCTGTGTGACCCAGGTCCATGTCCCATTCCTGGAATAGTTACATTGACCTGTGCAGTATGGCCCTACTAGGGACTGGAGGAGTTGGCCTGTTGTGTTTGCAGTGAGTATGTGCTCTTGGCCAATAGTCCCCTGAAGGGACCCAGCTGCCTGTTGACCTGTTATAGGGAAAGAGTTGGGGGAAGGGACTGCTGGCTCAGCTCAGGATGTCCTACAGCCCTGCCAGCTTGTCTCTTCTTGGCTGGATGGGAACATTGCACCCATGAGGGAGGTGATGTCTGCCACTACAGAGACAGATGGCTGGCTCTGAAAACCCCAGAATGCCACCCCTACCCGGCTTCTGGTGCTGTGAGGTCTGCTCTGTATCTCCTCAGAGACTGTGTACTTACCATTAAGCTTCCCTCCCATAGACGCCGAATGTTCTAGAAATGATACAGCTTTAGGGACCTTAGGGAAGGGTCAGCTCGCACTCCTCCCACTGCAAAATAGAGTGGGATGACCTCACCCCCTCCAGCTGTGTGATTAGAGCCACAGAGCCATCCTCAGTGCCACCCTGCCAGCCGCAGGGACCAGATCAGCTGGGGTCACCTGTACCTGGGTGGCACACCTGGGGACCCACTATAGACTACAAGCTTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTAAGAGAGACAGACTGACAGAGACACAGAGAGAGACAGACACACAGAGAGAGCGGGGGCAGGGGGAGGCAGTGTGAACCAAAGTCTGTCTCTCTTCTGGGCCCGTTTTTTTCCCTTATGGACCACCTGTTTATAATTAGGTCAAGGACATAATATGCTCCCACACCCTCTGCAAGGGACCCTCAGTAAGGGACATGTTTGTGTAGTGCAGCCAGCCTTGGGTCCTAGGTATGTCTAGACCCCAGCTGCAAGGGACGGTCCCAGGACTTGCTCAGCACCAGGGGACACCCAGACCACAGCAGATGCCTCTCATATAGCAGAGCAGATGGGTCCTGTTGTGAGACCACACCCCCAGCTGTGTGGCCCTGGGCTAGTCCTTCTCCTCTCAGTCACAATTTCTGCATTTGTAAGATGGGAAGATGGAACCACCCGTATTCCCTGCGGTTGTAGAAAGGTTTAAGCTAAATCAGGGGTAGTATTTAGCATTACATTACATGGCAAAGGACAAAAGCTCAGTATTGGGACATCTTGAGCCCACACATGTCCATTACTGTGGGCTGGTCTCCTGACATCCTTAGCTGGGTTACTTTGAGAGAGGCGGTTTGTGACTGAGTGAAGAGGCTAGCCCAGATTTGCTGCAGGTCGGATCCTTGACAGGTTGTCCACAAGCGCTGACCCATCCCCTTCTCGTGGCAG
Seq C2 exon
GCGTTTCCACCACTCGCTCACGGACCACCCACGCTGGATCCGAGAGCGCAGCCACGAGTCCTATGCCAAGAACTACTCGGTTGTCTTTCCTCACGATGAGCCCCTGGCGGGCCGCAACATGAGGAGGGACCCTCTGCACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006916:ENSRNOT00000009555:11
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=0.078
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGATGTTGGGTGGTGGCTG
R:
CTCGTGCAGAGGGTCCCT
Band lengths:
232-2190
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]