DreINT0099007 @ danRer10
Intron Retention
Gene
ENSDARG00000078994 | muc2.2
Description
mucin 2.2, oligomeric mucus/gel-forming [Source:ZFIN;Acc:ZDB-GENE-120904-1]
Coordinates
chr25:8265230-8265662:+
Coord C1 exon
chr25:8265230-8265392
Coord A exon
chr25:8265393-8265495
Coord C2 exon
chr25:8265496-8265662
Length
103 bp
Sequences
Splice sites
5' ss Seq
CACGTCAGT
5' ss Score
5.37
3' ss Seq
TTCATTGTGAATATTTTCAGGTT
3' ss Score
7.04
Exon sequences
Seq C1 exon
GAACATGCAACAACAACCAGAATGATGATTGCCCTGGATCCTTGGCAAACGACTGTAAAATAATGGCAGAGAACTGGAATACTACAGTTTGCACTCCACCAGCTCCATTACCTACTCCTAACTCACCCCATGTCCACCCTGACTGCTACCTACTAAACACCAC
Seq A exon
GTCAGTTCATTCTGTTGGTGTAATTAAATCAAATTCAACAAACTTTGCATCTTGAGAGTGAAATTTGCTTTTAGTAAACCTTCTTCATTGTGAATATTTTCAG
Seq C2 exon
GTTTGAAGCGTGCCACTCCCATGTGCCTCCTGAAAACTTCTTTTCAGCCTGTCAATATGACAGCAGTAATAACCCTGCTGAAGTGTGTGCCAGTCTGCAGAGCTACGCAAGCGTCTGTGCAATGTTTGGGGTCTGCATATACTGGAGGAACTACACAAGCCAATGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078994:ENSDART00000154598:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(7.7=21.8),PF087426=C8=PU(17.4=21.8)
A:
NA
C2:
PF087426=C8=FE(81.2=100)
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:
GGATCCTTGGCAAACGACTGT
R:
AAACATTGCACAGACGCTTGC
Band lengths:
255-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]