DreINT0099085 @ danRer10
Intron Retention
Gene
ENSDARG00000058556 | muc5.2
Description
mucin 5.2 [Source:ZFIN;Acc:ZDB-GENE-121108-1]
Coordinates
chr25:8341240-8341760:+
Coord C1 exon
chr25:8341240-8341486
Coord A exon
chr25:8341487-8341719
Coord C2 exon
chr25:8341720-8341760
Length
233 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
TGATTTGCACAATTTTACAGCAC
3' ss Score
6.41
Exon sequences
Seq C1 exon
AATCTGAGTGTTCAGAGAACATGAAGCACTCCTACGGTATGACTGGCTGTGGCCTCACCTGCCGTTCTCTCAGTGGACAAGAAAACACCTGCCAAGGGTCCTTCACGCCTGTAGATGGCTGTGTTTGTTCTGAGGGAACCTACCTTAATGAAGAAGGCATCTGTGTGCCTGCTGACCAGTGTCCTTGTTACAGCGGTGACCAGGTCACAAAACCTTCGGAAGTATCCCACGTAGATGGTCTAACATG
Seq A exon
GTAAGTTCCTCAATTAACATCCAATGCATTGACGATAGTTTCCCAGAGATGGGTTGTGGCTGTAAGGGCATCCGCTGCGTAAAAAACTTGCTGGATAAGTTGGCGGTTCATTCCGCTGTGGCGACCCCGGATTAATAAAGGGACTAAGCTGACAAGAGAATGAATGAATGAATGCATTGACGATAGAATACCAATGCAACCATTAGTAACTCCTGATTTGCACAATTTTACAG
Seq C2 exon
CACCTGTAAACTTGGCAAACTGCACTGCTCCAATCCTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058556:ENSDART00000153536:18
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=PD(0.1=0.0),PF0182612=TIL=WD(100=69.9)
A:
NA
C2:
NO
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:
TGTTCAGAGAACATGAAGCACTCC
R:
CAGGATTGGAGCAGTGCAGTT
Band lengths:
277-510
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]