DreINT0179337 @ danRer10
Intron Retention
Gene
ENSDARG00000005216 | zgc:158328
Description
zgc:158328 [Source:ZFIN;Acc:ZDB-GENE-070112-1202]
Coordinates
chr15:35459125-35459960:+
Coord C1 exon
chr15:35459125-35459259
Coord A exon
chr15:35459260-35459825
Coord C2 exon
chr15:35459826-35459960
Length
566 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TATGTTGTGCTCTTGCAAAGACT
3' ss Score
3.84
Exon sequences
Seq C1 exon
CATGTCCCAAATGGAGCCATGGTGCGGGTTGTTCAGAGGAGTGTGAATGTGTGCAGGAAAACTCTCTCTCTTGTGATCCCCAAATGGGCACCTGTTTGTGTAAACCTGGTTACCATGGCGACCGCTGCCAGACAG
Seq A exon
GTGGGTAAAACGGTGATGGAGGCATTTGAAACAGTTATATAAGGAAGACAGACATATAGTTGAAGACAAAATTAGAAGCCATTGTGTAAAAAATTTGTATTCTTTTGTTTTTAATATTTCGCAAAGTGCCGTTTACAGGGAAAGTTCACCCCAAAATGAAAATTTACTCACTATTTACTCTCTCTCACAACACTTGTTTCTTTCTTCTGTTGAACACCTACGAAGATATTTCGAAGAAAGCTGAAAACCTGTAAATATCGACTTCTATAGTAGGAAAAACAAAGAGTATGGAAGTCAATGGTTACAGGTTCCAGCATTCTTCAAAATATCTTCTTTTGTGTTCAACAGAAGAAACACAAACGGGTTTGGAACAAGGGGGAGTAAATAATGACAGAGTTTTCTGACATAACGGCCTCTTTAACTAAGACTTTCTCCAGAAACATAATATAATAGGAAATACTGTGAAAAGATTTACTTGCTCTGTTAAAAAGAACTTGAAAAGATTTTGAGCTATTAGAGCGAACAGTTTTGTCCTTATATGTATATTATGTTGTGCTCTTGCAAAG
Seq C2 exon
ACTGTGACGATGGATATTTTGGTGTTGGATGCCACGGGCTGTGTAACTGCTCTGATGGGAAGTCGTGTGACCCTAAAACTGGAGAGTGCCAGAGGATGTGCCCAGCTGGATATCATGGAGAGAAATGCCAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005216:ENSDART00000066737:17
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:
PF0005319=Laminin_EGF=PU(68.1=69.6)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(29.8=30.4),PF0005319=Laminin_EGF=PU(73.5=78.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGTCCCAAATGGAGCCATG
R:
CCATCTGGCATTTCTCTCCATGA
Band lengths:
270-836
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]