DreINT0099128 @ danRer10
Intron Retention
Gene
ENSDARG00000099470 | muc5.3
Description
mucin 5.3 [Source:ZFIN;Acc:ZDB-GENE-040426-1562]
Coordinates
chr7:72072354-72073867:-
Coord C1 exon
chr7:72073741-72073867
Coord A exon
chr7:72072610-72073740
Coord C2 exon
chr7:72072354-72072609
Length
1131 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGC
5' ss Score
5.06
3' ss Seq
CTTCCTATTTTTCCCCTCAGTGA
3' ss Score
10.18
Exon sequences
Seq C1 exon
AACTGCATCTACGACAGCTGTAACTGTGAGAGGAGCGAGGACTGCATGTGTGCTGCTTTATCGTCATACGCACACGCTTGTGCCGCCAGAGGGATCCTGCTTGAGGGATGGAGAGACGCTGCATGCA
Seq A exon
GTAAGCCTTTTTCTTTTCTTTTTTTAGAAACGGCTGATAGCTTCTTGGCCAACTTTTTTTGTATTTTAATTAATTATTATTTTTTGTGTGTGTGTAGCATATTCACAATTGTGTAGAAAATATTATAAGTGGTATATTGTCAGTGTTTGTACGCTTTCTTAAATGGTCTAATGTTCTTGTTTAGGACATTCCATTCTGCATATGCAATACATCAATTATTTATTGCTTATTTGCTTTTAGAACCATACAAAGTAGCACATACAGAACAAAATAGGAGGAAAAACATACTGTGAAAGTAAAGCAAGACACAAAACAAATTAAGTCAAAACAAAAGCACAAAAAATGTAAATAAATTAAATAAATTATGAATGATTGTTATACCCTCTCTCTGAATAGAAACATACACACATGCATGCACACATACATGCACAAATGTATGTTTGAAAATGTTATATATGATTAGTATAGAACTATATATATATATATATATGTTAATGTATAAATACACAACTATATAAAAATATTTCAAAGAAAGAGAAGTTGGAATGAAAGAAAATAAATAATAATAACAATTTATTATTATTATTATTGTTAAAATTATTGTTATTATTATTAATTATTAATTATCATTATTATTTTTCTTTTTACAAAACCACAACAGGAAGAGAATTGAGACACGCTAACTAATTTCTAATAACTGATTTGTTATCAGTTTTGCTGACAGCACATAATATTAGACTAGATATTCTTCAGGATACTAGTATTAAGCTTAAAGTGACATTTAAAAAACTTCACTATTAAGGTTAATTAGGCAAGTTAGGGAAGGCAAGTCATTGTAAGTGGTTTGTTTTGTAGACAATTAAAAGAAAAGCTTAAGGCGGCTAATAATATTGACCTTAAAATAGTTTTAAATTGAAAAAACAAAACAAAAATTATTCTAGCCAAAATAAAGCAAATAATAATTTCTTAAAATTATTATAAAAAATATCAGAAATACTGTAAAAATTTCCTTGCACTTGAGAAATATTTAAAAAGGAACAAATATTTCAGAGGAGGGTGAATAATTTCGCCCTTAACTGTATTTTTGCGTATGCTCATCAGGTTGATGAATCTTCCTATTTTTCCCCTCAG
Seq C2 exon
TGAAATACACAGAAACCTGCGCCGCCACCACAGTTTACTCATATCAGATGACGAGCTGCGGGCGCACATGCAGGTCTCTCAGCCAGGCTGACGGTTCCTGCACCCATGATCATGTGCTGGTGGACGGCTGCGGCTGTGCTGAAGGAAAGTACATGAATGAGAACGGAGACTGTGTTGAAGCTGCCGCCTGCTCCTGTTACGATTCAGGCAAAGTCGTTGCTTTAGGAGAGACCATCTCCAAAGACGGAGGATCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099470:ENSDART00000162367:16
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:
PF087426=C8=FE(56.0=100)
A:
NA
C2:
PF087426=C8=PD(1.3=1.2),PF0182612=TIL=WD(100=67.4)
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:
GCTGTAACTGTGAGAGGAGCG
R:
TGGTCTCTCCTAAAGCAACGAC
Band lengths:
345-1476
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]