GgaINT0057275 @ galGal4
Intron Retention
Gene
ENSGALG00000020492 | MUC6
Description
mucin 6, oligomeric mucus/gel-forming [Source:HGNC Symbol;Acc:HGNC:7517]
Coordinates
chr5:14439890-14440773:+
Coord C1 exon
chr5:14439890-14440031
Coord A exon
chr5:14440032-14440662
Coord C2 exon
chr5:14440663-14440773
Length
631 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATC
5' ss Score
4.14
3' ss Seq
TTATTTTTTTATTTTTTTAGGAT
3' ss Score
11.92
Exon sequences
Seq C1 exon
CACTTGCAGAAAAGGCAAATGGAAATGTGTTCAGAAATCAAGATGTTCCTCAACATGTAATCTTTATGGAGAAGGCCATATCACCACTTTTGATGGACAGCGTTTTGTGTTTGATGGCAACTGTGAATACATTTTAGCTATG
Seq A exon
GTAATCTGCATCTTACTGATGCTTTTGGCTGTATCCTAGTATCAAGAAATACCTTGTTTTAGAGGGCTGATGAAAGTATCCTGGGATGTATCTATACAATATATTTACAATTTTAAAATAAAAAGTGTTTAGTTCCCCAAATGAAAATTTTAATGCACATGAAACCAATTTTAGATGAAATAACATTTTAAGTCATTGATGTGTACATCTTCTGTACCAGCCAACTGTGTCTTTCAGTGAAGTGATGTCAGTTTGTCTACTGAATCAGAGGTCATCACTATTACCTTCCAAAACAATTAAAGAACTGTGATTCAGTAGTAACTTTTCCCCTTCTGACTACAAATATGTGGGTACTACAAGGAATAGAATGGTTCAGCTACCAAAACCATAAAATATTCTAGGATCTATCTATTAATAGCCAGCAGTGGATTTTAAGACATTCACAGACGGACTGTCTCTCTTATGAGACTAAATAAGGATGGCCCGCTGTACTGAAAGGCAGAATCACAGTCACAATGTGTTTGAGCTTTCTATACTTTTTCATGCTTGTAAGCTGGGAGACTTCAGACACAATGTCTATTAAATCTTTTTGCGTGTGTTTTCATTTTTTTTTATTTTTTTATTTTTTTAG
Seq C2 exon
GATGGCTGCAATGTTAATAGACCTCTTTCCTCTTTTAAAATTGTTACTGAGAATGTCATTTGTGGGAAATCAGGGGTTACATGCTCTAGATCCATCAGCATTTACCTTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020492:ENSGALT00000032694:23
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:
PF0009313=VWC=PD(66.1=85.4),PF0009420=VWD=PU(18.4=58.3)
A:
NA
C2:
PF0009420=VWD=FE(23.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAGAAAAGGCAAATGGAAATGT
R:
CCCAAGGTAAATGCTGATGGA
Band lengths:
249-880
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]