DreINT0130777 @ danRer10
Intron Retention
Gene
ENSDARG00000058102 | sardh
Description
sarcosine dehydrogenase [Source:ZFIN;Acc:ZDB-GENE-040426-996]
Coordinates
chr10:10602779-10603580:+
Coord C1 exon
chr10:10602779-10602962
Coord A exon
chr10:10602963-10603488
Coord C2 exon
chr10:10603489-10603580
Length
526 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TAAAATATGGTTTTCTTTAGGAT
3' ss Score
8.92
Exon sequences
Seq C1 exon
GTCAGCCCTGATTTTGTGCGCAGTGGAGATTTCACTCTGGAACGGATGGGCGTTACATACAAGGCCACAGCCCACCTGAAGTCTCCCTTCGACCCTGAAAACAAGCGCGTGAAGGGCATCTACGGCTCACCACAGGACATAGCCAGAATGTAACTGATCCAGACTGAGCTTCAGTATAACAGAG
Seq A exon
GTAAATGTTTACAGGCCTTTATTCAACACATCAGCGTCATCAGCATTCCAGGACAAAACAACAACACGCTGATCCTACTGGGTTTATATTCAGGGATCATTCATTATAATGGATCATTGATTCTATAGTAAAAAGGTCCAATCGTTTTTAACATCATCCTGTGCCTTAATGTTCAGGAGGAAATCACTCATATTTTCCAGAAAAGAGTATTTTAGACAGCAAAGTCTTAATTTCTTTTTGTACTAGCTTGAATGTCTGTGCATTAAAGATGCTTGTCAGTGATTGCATGTAAAATGAAATCTAAATAATTTAATAGTTGAATTAATATTTTACAAATTTAAGTTAATAGAATTAAATAAGTACAAATGGTTTATTTAAGAAGTGAAGGTCTGTTTTAGAAATTACAATATGAAATCTCCATGTTGAGCAATCAAATCATTCCCTCACTCATGTGCTGTGACTTGATCTGATAACTGGAATTTCTACTATTTGCTCATTTTTATTAATAAAATATGGTTTTCTTTAG
Seq C2 exon
GATGTCTGCTGCTGCTTACTTCATTTGGTGTTCAAGTGGAAACTGTAAATGTGCTAAATTTATGAAAAATAAAGCGTTTGTCATATTGTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058102:ENSDART00000080904:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF086696=GCV_T_C=PD(25.5=49.0)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGCCCTGATTTTGTGCGC
R:
AGCACATTTACAGTTTCCACTTGA
Band lengths:
238-764
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]