HsaINT0106771 @ hg19
Intron Retention
Gene
ENSG00000198788 | MUC2
Description
mucin 2, oligomeric mucus/gel-forming [Source:HGNC Symbol;Acc:7512]
Coordinates
chr11:1080477-1080984:+
Coord C1 exon
chr11:1080477-1080615
Coord A exon
chr11:1080616-1080873
Coord C2 exon
chr11:1080874-1080984
Length
258 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
TGCCTCTTGCCCCATCACAGGGT
3' ss Score
7.48
Exon sequences
Seq C1 exon
TGTCTGTAACGCTGGCCGCTGGGTGTGCAAAGACCTGCCCTGCCCCGGCACCTGTGCCCTGGAAGGCGGCTCCCACATCACCACCTTCGATGGGAAGACGTACACCTTCCACGGGGACTGCTACTATGTCCTGGCCAAG
Seq A exon
GTAGGCTGCCCAGGGTCTGGGGCATGGGGCAGAGCTGGGGCTGGCATCCAGGCCCTTGGCTGTCCCGGGGTGGGTGGGCTGGCTGTCCCTGAAGCAGAGGGTGCCTGTGGGCTGTCCTGGGGCAGGTGACCATGCTTCTGCTCTCTGGCTGGAGAATAAGAAGCAGGCCTTCCTTTCTAAGCCACTGCCGGGTCCTAGGGTGCAGGGTGCTGCCCGTCCCGGCCCTCAGCAGCTGCACTGCCTCTTGCCCCATCACAG
Seq C2 exon
GGTGACCACAACGATTCCTACGCTCTCCTGGGCGAGCTGGCCCCCTGTGGCTCCACAGACAAGCAGACCTGCCTGAAGACGGTGGTGCTGCTGGCTGACAAGAAGAAGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198788-MUC2:NM_002457:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009313=VWC=PD(65.6=85.1),PF0009420=VWD=PU(18.1=59.6)
A:
NA
C2:
PF0009420=VWD=FE(23.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTGTAACGCTGGCCGC
R:
TTCTTCTTGTCAGCCAGCAGC
Band lengths:
245-503
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)