DreINT0099125 @ danRer10
Intron Retention
Gene
ENSDARG00000099470 | muc5.3
Description
mucin 5.3 [Source:ZFIN;Acc:ZDB-GENE-040426-1562]
Coordinates
chr7:72074837-72076545:-
Coord C1 exon
chr7:72076405-72076545
Coord A exon
chr7:72075002-72076404
Coord C2 exon
chr7:72074837-72075001
Length
1403 bp
Sequences
Splice sites
5' ss Seq
GTGGTATTT
5' ss Score
3.1
3' ss Seq
GGTAATAATTCGATCCTCAGGTC
3' ss Score
4.46
Exon sequences
Seq C1 exon
CTTCAGTGAGTGTTTTCAAGCCCTCCTCATTCTACATCATCATTGAAGCTCCGCTGATTGGGCTTCGTCTGGAGATCCAGCTGGTGCCAATAATGCAGCTTTACATCACAGCCAATTCAGTGTATCAAGGAGAAACATGTG
Seq A exon
GTATTTATCTCTATTCTTTCTTTATTTATTACATGTTTGTTATATTTAACCCTTTCATGCACTATCAACTAGCAGAATCAACTATAGTTATAAAAACATCCATCTGGAAATTTCAAACAGGATTTTTAATGTTTTGTACGTATAGATTTGATCAAGTGGTATTTGCCTACATACAAGTCTGAATATTTTCTGGCTTAAAAGTGAAGAAACAACTCTGTCCTAATTTGAACTCTTTTATGAAGTAAACCACCCGATTCAAATGTTATCATTTGATTGAATGGGTGTTATTAGTGGTTATAAGCTGATATATATGGGCCAGTAGGGGCCTTCTGCGCCTACTAGTAGGCTCAGAAGGCTGTAATCATCCATCCACATGGTTAATCAGCTATACTAATAGAGAAGACTCCAGATCCAGATCTGTTTTTACATTACTGTGACGGTTGGGTTTTGGTTTGGCGTAGTAAAATACAATTAATGGGAAATTTAATAAATAATATAAATAATGTAAGTGTATAATCGTAACCGTACCGTAAATAACCGTAAGTGATCTATAGCTGATTAACCATGTGGATGGATGATTACAGATTACTAGTAGGCGCAGAAGGCCCCTATACTGGCCCATATTTATCAGCTGATAACCACTGATAACGCCCATTTAATCGAGTTAACTCAATTAAAGAGGTGTTTTAGCATCACTTTGCCAGAATTTCTTCATCATAATATCTTAAGTCAAAAAAATGTACGTGTAATAAAATTAGCTGGCTTTTATTGTTATTTATTTTATTGTTATTTGTATATTGTTTATTCTTGAAAATAGCTTCTTTATTCTGCTGTATTATGAAAATAGCCTGAGATGCAGACATGCCATTAAATTAAAATATAGTACTATTATTACTCAGATATAATAAATCTTCATGTTTATTTATTTATTTTAAGTGACCCCGGATCACGAAAATAGTTGTAAGTCTCATTTTTTTAAAAACTGAGATTTACACACCATCTGAAATAGGAATATATAAGCTTTCTATTGATCTATTATATTATATTACAATGTTTGGTTGAGATAAAACTAAGGGCTCAATAAAATCATAATATTAAGAAAATCACCTTTAAAGTTGTGCTAATTAGGTTCTTAACCATGCACATCACTAATTAAATTCAGTAGCAAAAGAGTTTTGATATATTTACAGTGGTACTAAATATTTTCATAAAACAAGATCTTTACTTAATACTAAAAATATGTATAATTTAATAAATGTATTGTTGTTTATTCATACAAAAACTGAAGGTTTTGCGGTCCAGGGTCACATATATCTTTGAAGTCTTTATGTTTTCTACCTGTACTATATATCTTCATTTAACTGTATGCCGTAGATTAATTGAGGTAATAATTCGATCCTCAG
Seq C2 exon
GTCTTTGTGGCAATTACAACAACATGGAGGCTGATGACTTCACAACCATCGGTGGACTCCGGGAAGGAACAGCTCTGGATTTTGCCAACACCTGGAAAACAAGAGCAAGCTGCCCAGATGTTAAGAGAAGCTTTGAGAACCCGTGCAGTCTGAGCACAGAAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099470:ENSDART00000162367:13
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(30.1=100)
A:
NA
C2:
PF0009420=VWD=PD(12.2=33.9),PF087426=C8=PU(0.1=0.0)
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:
CTTCAGTGAGTGTTTTCAAGCCC
R:
TCAGACTGCACGGGTTCTCAA
Band lengths:
294-1697
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]