DreINT0099006 @ danRer10
Intron Retention
Gene
ENSDARG00000078994 | muc2.2
Description
mucin 2.2, oligomeric mucus/gel-forming [Source:ZFIN;Acc:ZDB-GENE-120904-1]
Coordinates
chr25:8264853-8265392:+
Coord C1 exon
chr25:8264853-8265036
Coord A exon
chr25:8265037-8265229
Coord C2 exon
chr25:8265230-8265392
Length
193 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGC
5' ss Score
8.15
3' ss Seq
TCCAAATAATTCTTACTAAGGAA
3' ss Score
2.41
Exon sequences
Seq C1 exon
GCTCTAGAGGGAAATATTATGCTAGCACTGCCGTATGATAATAATGGCCTGAGGGTTATTAGTTCAGACCTAAACTTATTACTAGAGATTCCAAAACTCAACGCCTATGTACTATTTGGAGTCTCTGGCTTCAGCATCAACCTGCCATTCCAGTATTTTGGAAAAAACACAGAAGGCCAATGTG
Seq A exon
GTAAGCAAACAAAAAAATATATTTTTTGAGTTGAAATAGTTTAAAAAGAGGTCATATCAGATAAAATATTTTGTCAATATTCCTAAAAAATAAAGCATGATGTTGAATAAAACAATATTTGAATGATAATTTGGTTGAAGTAAATGATCTTATTTAGTAACAATACTAATTATTCCAAATAATTCTTACTAAG
Seq C2 exon
GAACATGCAACAACAACCAGAATGATGATTGCCCTGGATCCTTGGCAAACGACTGTAAAATAATGGCAGAGAACTGGAATACTACAGTTTGCACTCCACCAGCTCCATTACCTACTCCTAACTCACCCCATGTCCACCCTGACTGCTACCTACTAAACACCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078994:ENSDART00000154598:20
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=0.033
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(39.4=100)
A:
NA
C2:
PF0009420=VWD=PD(7.7=21.8),PF087426=C8=PU(17.4=21.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGATTCCAAAACTCAACGCCT
R:
AGTAGGTAGCAGTCAGGGTGG
Band lengths:
255-448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]