DreINT0099115 @ danRer10
Intron Retention
Gene
ENSDARG00000058556 | muc5.2
Description
mucin 5.2 [Source:ZFIN;Acc:ZDB-GENE-121108-1]
Coordinates
chr25:8366306-8368332:+
Coord C1 exon
chr25:8366306-8366423
Coord A exon
chr25:8366424-8367812
Coord C2 exon
chr25:8367813-8368332
Length
1389 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGG
5' ss Score
6.17
3' ss Seq
AGCATGTTCATCTTGCACAGGTA
3' ss Score
6.37
Exon sequences
Seq C1 exon
GCAAGCCAAAGATCTGCATTGTTCGTAAAAACACCACACATGTGAATGCAAATGACTGCAAGTCCATCAGCCCTATAGAAGTGACGTCCTGCAGTGGTCACTGTGGCACCCAATCAAT
Seq A exon
GTAAGGACACATGCACATCTAACAGCCACTATATGGGAATTTTTTGTCTCACCAAACACAAGTGGACAATGAGAAATTTAAGTGTAAATGGAGTCTGAAATGATCCAGAGGATGTCAAAAATGCATTTGATGTTCGTATTGCTATGATTCATATAGCTTTCATAGTGTAAAAAAAAAGGAGATCAACTCAAATAATTCCAATAGCCTTTATAATCCAGCTACTTATCCAATTCTAAAGCATGCTATAGCTAGACTGGGTTTTATACTTTGATGTCTGAAATTGATTGGTTTGAAAGCATTTAGCATTCTCACATAGTCGTCTTTAAAGTTATTATGCAAGTTGTAGTTATGTAACGATATAAAAATTTCATGGTACGGTAATACCTCGGTATGAATGGCACGGTACGGTATTTATTAAATAATTTACAGGAAAAACAAAACTAATGAAAAGACTCGTAAAAACTGCCAAAAGTGTTTATTTACCTTAGCACTGAACATATCAATGACATACAAATTAGCCATCTATCTGTAAGTTTTGAAACAGGAACTTCAATTTTTCAATTTTAATAACAAAAAACTATTAAACCATATTAAAAAAATAAAGTTTCAATTTAGTATTGTTGAAAACTCATCACATTCAACATTTAATCACTCACTCACTTAGATAGAGATGATTTTTTTAAGCAAAATTATCATATAACTATAATCTGGTAAAAGCTGGGATCACTGGGCATGTCCCCTGCATCAGAAAAAAACCCTTTCATTTGGGACTGAGGTTTCTGGGACAGAGAGATATGATTTAGCCAAGGTTGACAGCAGTTGGTAACGCTGTGCATTGTCTTTCCAACACTTGAGAGGACAAGCCATGAGTGAGATAGAGGTCTCTTTGCGGTACAAGTCAATGTCTGCATCAATCTAACAAGTGTGCTGTGTTCTGCAGTCCTCATAACTGTTTTTAGTCGTATTCCGTGACTTATAGTTCACCACAGTCTGGCAGTGCCTGCATACCGTTTTTTACTTTGTCTGTCACCTTTTCTCCTTTTTCGCATCTTTTTAAAAAGAAACCGAAATGCTTCCACACATCCGATTTAAAACCCGCTTTAGGTTCACACACTCCATTTCCGCATTACTGGATTTGTAGTGACAACAGACCGCAAAGGATAATGGCCACGCCTAGGCTGATGGGAATTGTAGTTCCCGCTACCTCCTGTTCGCTTCATTCGCCTAAGCAAACTTTTCTCAGAAATATAGTTTTATTGAGTCATGCGCCTACGGTAATATTGAAAAAAATTACTATTGCGGTATGACGGTATTTACAATATTGTTACATCCCTAGTAAGTTGTGCTACTTAGAAATGGAGCTAATTAGAGCATGTTCATCTTGCACAG
Seq C2 exon
GTATTCAATGGAAAACAGCATCATGATGCACAGCTGTTCTTGCTGCAGAGAGGAGAAATTCGTCACTCGTCAAGTGAAGCTGAAGTGTGCCGATGGCAGAGAGATCGTCCACGACTATGTTTACATTGAGAGCTGCACATGCACTCCTACCAAGTGTGGTGATTAGACAGCATGAAGACTGATTTAAATAAAGCTGACCTTAATCAAAGCTTTTCCTTTGATTACTGCTGATTTGTGATAAATTACTTAAGAAAATAATACTTGAAGTAATAATAAAAGCAATGTGTGTGTGCATGTGTGTGTGATCTATCAAAACTTCTTCATGCCTTTTTTCTAGGGATATGGCTTTCACTTTAAATGTTTACTTCTGTTTTTTTCAAGCTTTTTTCTATGATGTAATGACATTTCTAAATATTTGTAATGGAATTAGGCGAATGATGAACTCAATAAAGAGGTCAACCAGCAACAATTTAATTTCAGTGCATTCAATTTCCCAAATAAAGGGTCAAAATCATCTATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058556:ENSDART00000153536:45
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGTGACGTCCTGCAGTGG
R:
TCACACACACATGCACACACA
Band lengths:
346-1735
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]