DreINT0130767 @ danRer10
Intron Retention
Gene
ENSDARG00000058102 | sardh
Description
sarcosine dehydrogenase [Source:ZFIN;Acc:ZDB-GENE-040426-996]
Coordinates
chr10:10532723-10533331:+
Coord C1 exon
chr10:10532723-10532806
Coord A exon
chr10:10532807-10533217
Coord C2 exon
chr10:10533218-10533331
Length
411 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
TTCTTTGTACTTTTCCTCAGGTT
3' ss Score
10.96
Exon sequences
Seq C1 exon
GTGCTACAGGAACACGGCTGTGTGTTTCAGGAGAGACATGGCTGGGAGAGACCTGGATGGTTCAACCGAGATGGAGCTGCTCCG
Seq A exon
GTGAGATTTCAACAAAAAAACACACTTGTTTCAGTGGTTTATAAGGACTCTATTGGCAAAATATTTTATACTGTAAAAAAAGCTTAATATATGACCTTACCCAACCACTAGCCCAACCCTTACAGGAAACGTGTGGCAAATTCTGAATGTGAAAAGGCTTTGTTGGGTATAATGTTCTCATAAACCACCTCAACTTTGTTATACTTGGGTCATATCCAAGTCATTATACAAATTTGTCCTTGTAAACCTCCAAAATGTATTCACACACACACACACGAATATGTACCCTTACTTCAGCAGTGGAAATTAATAACTCTTTATATTAATTATGACAGAAAATCCACTTCATTATCAGCTGACGGTTTATTGATGTGTCTGTTAAACTTGTGTTTTCTTTGTACTTTTCCTCAG
Seq C2 exon
GTTCTAGATTATGATTACTATGGTGCATATAATGTTCCCAAGAACACGGTTTACAAATACAGCAGGATACTAAGCAAAGAGTACACCTTTGACTTTCCTCCACATCATGATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058102:ENSDART00000080904:12
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=0.000
Domain overlap (PFAM):
C1:
NO
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:
GTGCTACAGGAACACGGCTG
R:
GATGTGGAGGAAAGTCAAAGGTGT
Band lengths:
190-601
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]