DreINT0099116 @ danRer10
Intron Retention
Gene
ENSDARG00000058556 | muc5.2
Description
mucin 5.2 [Source:ZFIN;Acc:ZDB-GENE-121108-1]
Coordinates
chr25:8335314-8336343:+
Coord C1 exon
chr25:8335314-8335425
Coord A exon
chr25:8335426-8336255
Coord C2 exon
chr25:8336256-8336343
Length
830 bp
Sequences
Splice sites
5' ss Seq
GCGGTATTT
5' ss Score
4.94
3' ss Seq
CATTTCATGATGTTCCCTAGATT
3' ss Score
6.61
Exon sequences
Seq C1 exon
GGTGTCTGTTCCGATCAATCAGAAGGGAATTAAAATAGAAGGAAGCCCAACAAGTATTAAGATCTCCAGATATGGAATGACCATCTTTTGGGAAGAAGACAACTCTATAGCG
Seq A exon
GTATTTACAATGTGCAATATATTGAGACAATTATGACCTCTAATGGTGGCTCAGTGGTTAGCACTGTCACATGACAGCAAGGTCGCAAATTCAAGTCCTGGCTGGGCCAGTTGGCATTTCTGTGGAGAGTTTGCATGTTCTCCCCATTTTAGTGTGGGTTTACTTCAGGTGCTCCGGTTTCCTCCACAGTCCAAAGATACCTGGTATAAGTGAATTGAATGAACTAAATTGGCCTCTAGAGTATGTGTGTGTGTGAATGTGAGAGTGTATAGGTGTTTCCCAGTACTGGGTTGCTGCTGGAAGAGCATCCGCTGCATAAAACATATGCTGGAATGGCTGGTGATTCATTCCACTGGGGTGACCCCTGATAAATAAGGCACTAAGTTGAAGGAAAATGAATGAATGACTTCTAATTTACACTTCAAAACTGATTTGATGAAATCTGTTGATAGCGGTAAAAAAACAAAACAAAGCAAACCTGATAAAGTTCCAGCGCAGGTTCTCTTTCACAATGAGTGACAATTAATCTATGAACCTATCATGAAATCACACACACACCCTTTAAGCCTCTATATTTGTTTGCACATGATAACTATGGAAAAGCAAACAGGATATCAGTTCTACAAATCATAATGCAAACAGGGATTGTTTGAGAAAGCCGCAGTTAGCCAACAGGTTTGGTCATGTAACTGACAGCTCAGTGTTGAATTTATTAAGTGTGTTTGCTCTGCCAAACAATTTAGCCATTAATAAACATTTCGACAGGCTTGAGTTGTTCTGAGAAATTGATCTGTGTTTGTATATCACTGACATTTCATGATGTTCCCTAG
Seq C2 exon
ATTGAACTTGCGGAGAAATATAAAGGGCTGACATGTGGACTCTGCGGAAACTACAATGGCGACAAGGATGATGATATGCCTGAGAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058556:ENSDART00000153536:5
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=0.134
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(26.8=100)
A:
NA
C2:
PF0009420=VWD=PD(19.4=93.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGTCTGTTCCGATCAATCAGA
R:
CACTCTCAGGCATATCATCATCCT
Band lengths:
200-1030
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]