DreINT0130780 @ danRer10
Intron Retention
Gene
ENSDARG00000058102 | sardh
Description
sarcosine dehydrogenase [Source:ZFIN;Acc:ZDB-GENE-040426-996]
Coordinates
chr10:10439872-10441208:+
Coord C1 exon
chr10:10439872-10439995
Coord A exon
chr10:10439996-10441107
Coord C2 exon
chr10:10441108-10441208
Length
1112 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TTGTGTCTGTGGTTTTTCAGGGG
3' ss Score
10.63
Exon sequences
Seq C1 exon
GTGATTGAGAACTGTCCAGTAACGGGTATCCAGGTGAAGGTTGATGATTTGGGTGTTAAGAGAGTGAAAGCGGTGCAAACTCCTCATGGCACCATCCGAACACCATGTGTGGTCAATTGTGCAG
Seq A exon
GTAAGGATGAGGCTGATTTCCCCAGCAGAGGGCAGTGTTTGATCATGAACGAAATTTAACCACATCATCTGTAGAAGCTTACATGCGTTCACAGCTGACATTCAGATCATTAATAAACAGCTAAAAGTTCACAACACATTAAAGGAAAAAATTGAAAATCATTTATTTACAAAATCACGGGTCAGAAAGCTGTATGAGTTTCTTCTGTTGAACACAAAATGTTATTTTGAAAGATGTTGGAAAAGGGTAACCACTGACTTCTATAGTATTTGTTTTTCTTTTGAACGTAAAGGGATAATGCTTTGTAACATTCTTAAAAATGTCATCTTTTGTGTTCAATAGAAAAGCAAAAGCATAAGGGTTTGGAATCACTTCAGCGAGAGTAATCATTTAGTATTTTTTATTACTATATTTTCAGTGAATATCACTTTAAAGACGTGAGACCATCCTGAAATGTATCGAAAATGCTAGTGTTTTATATATGCATGTACATTAATGTCTGTTTCTCTTGATTTATTTAGTATACGTTTGTTTGACTTTTATTTTATTGCTTTAAGGTCTCATTACTTTTGAAATTTCTAATAAAAAACATTATAATTTAGAGCAGTTTAGTCATAATGACAAATGTTTTTATTTGTTGTAGTGGAAAATCATGGTTATTTCAGTAAATATTGATTTCTTAATTATTCTGAAGTTAAACATTGTTATTGTGTTGTCTAAAAAAAGGAAAACTTATCCGTAAACGTTGTTTTCTTTGCTTTGAAATGTTACAAACGATAGAGCTTTTATTTTGAAATGATTTTTGTTGAGTTGACAACAGAATTACGAACCATTCTTATTATAAATCAGAGAATATCTTTCTTAGGTAATGTTTTCATGAACCATAATATAGTGTACTGTATAATAAGCTTCTCCAAGATACTGAAATCACTTAAAATGAACTGTTGATGTGAAAGCATCCAAGTGCATATATTTTTTCAAATGGTCTCTTAATTAAATTATATTTAAAATTGATGTCAATCAAATTTAATCAGCTTTCTTGTTTATTATATTATTACACCATATTATACAGCATTATCCAGTTGTTTACATTTGTGTCTGTGGTTTTTCAG
Seq C2 exon
GGGTTTGGGCCACTAAACTGGGTGAGATGGCAGGTGTTAATGTGCCATTGATTGCGATGCACCATGCTTATGTCGTCACAGAGCGAATCGAAGGAATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058102:ENSDART00000080904:5
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:
PF0126619=DAO=FE(11.4=100)
A:
NA
C2:
PF0126619=DAO=FE(9.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTGAGAACTGTCCAGTAACGGG
R:
TGAATTCCTTCGATTCGCTCTGT
Band lengths:
222-1334
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]