RnoINT0130714 @ rn6
Intron Retention
Gene
ENSRNOG00000006916 | Sardh
Description
sarcosine dehydrogenase [Source:RGD Symbol;Acc:621125]
Coordinates
chr3:5786442-5787727:-
Coord C1 exon
chr3:5787623-5787727
Coord A exon
chr3:5786572-5787622
Coord C2 exon
chr3:5786442-5786571
Length
1051 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TCTCTGTGCTTCCTTTGTAGGTG
3' ss Score
12.46
Exon sequences
Seq C1 exon
AACATGCCCAATGTCCGGGATCATGATGCTTCTGTCTACCTCCGCCTGCAGGGGGATGCCTTGTCTGTGGGTGGCTATGAGGCCAACCCCATCTTTTGGGATGAG
Seq A exon
GTAAGACCACCCCCAAGAGTCCCACGGTGGAAAGACAGAGCTGCCTTGGCCCCACCCAACTTGAGAGCTTCTGAGAGCTGGCGCTCAGGTATACCAGAAGCCAGGTTGGAATTGCTGCCCACCTCAGCATGAGGCAAAGCTGGGACTCTAGAAGAACTTAGAAACCACCCAGCCCTTGCTGCCCCTCTTGCCCCTCTCCAAGGCCACAGTGGAGCCTCAGGGCTGGAGGACAATTTAGGGGACAACATGGCTGTCCTATCCAGATGTCCACAAACAGAATGACTAGAGGGCGATTCTAGGCGGGGCGGGGGGGACTAGCCGCCCAGAGGTAGGGAGTCAAACAAAAGTTCACAGGGTTGAGTAGTGCAATGTGGTGGAGACTGCACCCCAAGTGTAGTTAGTAGGCTGTGGATTGTCAGAGAGGTCAGGTTAAAGGCACAGGTTGGCTAGATGGCCAGTTGCCAAGGTTGTGGTGGTCTAGGAGCAGCTCCAGCTTGTCCCGAGATAAGTCACCCTCACCTACCTTGGCAAGGTCTCTCTGTGTAACTCTAACTATCCCGGCACTCACTATATTGACCAGGCTGACCTTGAACTCCCGGTACCTCCTGAGTGCTTGGATTAAAGGTGTGTGGTACCATGACTGGCTGTGCTTGCTTTCTAAAAATCAGAAAGGTTGTCAGAAGGCCGAGGACAGGGGAGTGGTTAGGAAGGCGGGAACATGGAGGGTTTTGAGCAGTTGTGGTAGGTAACTGGGAGCCATTAGATGCTCCAGAGAAGGGTGGGTCACTGTATGGTTTGAGAGAATGGGTTAGAGGCAGGAAGCTGGAGCCCAGTTGGAAACTACAGAAACAGTCCAGGAAAACTAGGTGGGGTGAAACCAGGAAGGAGGGGGAGTGGGTGGATTGAGAGCCCACAGGTAAATCCCATCCTCTGTCTCGTCTGACCTGGTTCCTTACCTGACTAGGGGCTGGAGCTGTGCCGTAGGTGGGCCTGGACTGGATCAGTGCTTTTCTCCGGGCTGATTGACAGATTCTCTGTGCTTCCTTTGTAG
Seq C2 exon
GTGTCAGACAAATTTGCCTTTGGCCTCTTTGACCTGGACTGGGATGTGTTCACTCAGCACATTGAAGGTGCCATTAACCGTGTCCCCGTGTTGGAGAAAACGGGGATCAAGTCCACTGTCTGTGGCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006916:ENSRNOT00000009555:8
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:
TGTCCGGGATCATGATGCTTC
R:
GGACTTGATCCCCGTTTTCTCC
Band lengths:
208-1259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]