DreINT0098999 @ danRer10
Intron Retention
Gene
ENSDARG00000078994 | muc2.2
Description
mucin 2.2, oligomeric mucus/gel-forming [Source:ZFIN;Acc:ZDB-GENE-120904-1]
Coordinates
chr25:8252483-8254096:+
Coord C1 exon
chr25:8252483-8252650
Coord A exon
chr25:8252651-8253856
Coord C2 exon
chr25:8253857-8254096
Length
1206 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TAACCTTTGTATTTTCACAGGGA
3' ss Score
8.72
Exon sequences
Seq C1 exon
AGAGTATCCCTACACCTTTCAGATGAGCTTGAAACACAATATTTAATGGAAAGTGGTGCACTAATTAGAAAAATTGGAATGTACCTTGTCATTGATACTAACATTGGGCTGACAGTTTTGTGGGACCGCAAAACCACCATTCACATCATTCTGCAACCTGAGTACATG
Seq A exon
GTGAGTTGACAATACTGCATATCCACGTTCATTTTGCCACACAATGGAATGTCTTTAAAATGGCCAGAATTAAATTAAGTAATTACAGTAAGCTACATGGCAGTTCATTCTGCTGTGGTGACCTCTGATAAATCAAGGACCAAGCCAAAGGAAGGTGAGTGAGAGAGGGCCCATAGGCTACATCAAGCCTGCACATAGTCAAATGCAGACACAGATCAATCCAACAGTTGCAGTGGTTCTCAATTCCAGCACATATTTTGCTTGTTTCTCCTGTAACACACCTGATTAAGATAACCAGCTCAGTAGGTGACAGCTCTATTCATGAACTCTGTTTCGATTGACAAGGTACCGTTTGTTCCTCCTCAGCATGGGAAATCTTTACTTTGACTTGGAACATTCAGATTTGTGCTTTGCTACAGACTAGGGCAGGGATGTCAAACTCAATTCCTGGAGGGCCGCAGCCCTGCAGTTTAGTTCCAACTCTAATTAAACACACCTGATCATACTAATTGAGTCGTTTGTTTGAAACCTACAGGTAAGTGTGTTGGAGCAAGGTTGGAACTAAACTGTGCAGGGCTGCCGCCCTCCAGGAATTGAGTTTGACATCCCCGGACTAGGGTGTCTTTAACTCAGACTAAACCTACTAGAGAAGTATGAAATCATTAACCTCTGTAAAATAAATTATTTAAATTTACATATTGCACACTAAAATGTTTGATTGAAACAAATGCTCCCTCCTTAGTCCACTTTGCAGGATGCTTGATGTCGAATTGGTACAGATACTAGCTTTGCCTTCTCTGGCAGACCGTTATCCATAATAGCCACTGCTCTGTGCTGTATTTTTCCTATCCAGGTTTTATTGCATTATGCTTTTGCTGCTGTCATATGATAAATCAATAGCAATTCTGAGGTGAATTTGAATAACACCATGCGCATTGCTTATGTTAATGGGTGTATAATATGTGAAAATGAAATTTAAAAGGCGAAATAAAATAAAACCATATGTCTATAAAAATATTAATATTGACTAATAAGCAACGACTTATACCAACAAACTGGTCTAGCTCAGAGTAGTAATGAGTCCTTTTTTCTTCTTCCAGTTATTACGAAAGAGAACTTAATTTTGGTGATTTAACTCCAGAGATACATCCACTGCTTAGTTTCATTAAAGTGAGCTACATTAATGTAACCTTTGTATTTTCACAG
Seq C2 exon
GGAGAAGTATGCGGCCTATGTGGAAATTTTAACGGAGATGGAAAAGACGACTTCACCACTAAAGGTGGTGTGCAAACTTCAAATGTAATTGAGTTTGTTGACAGCTGGAAGCAGAAAACCTCCTGCCCTGATGCTGCACCAGACTTTGACCCATGCGTTAAGAACCTTTATAGAGAGGAATGGGCAGTATTAAAATGTAGCATCATAACGAGTGATACATTCAAAGACTGCCAAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078994:ENSDART00000154598:14
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:
PF0009420=VWD=FE(38.9=100)
A:
NA
C2:
PF0009420=VWD=PD(16.7=29.6),PF087426=C8=PU(28.0=25.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCTACACCTTTCAGATGAGCT
R:
ACTGCCCATTCCTCTCTATAAAGGT
Band lengths:
350-1556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]