DreINT0099000 @ danRer10
Intron Retention
Gene
ENSDARG00000078994 | muc2.2
Description
mucin 2.2, oligomeric mucus/gel-forming [Source:ZFIN;Acc:ZDB-GENE-120904-1]
Coordinates
chr25:8253857-8255136:+
Coord C1 exon
chr25:8253857-8254096
Coord A exon
chr25:8254097-8254979
Coord C2 exon
chr25:8254980-8255136
Length
883 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGG
5' ss Score
10.26
3' ss Seq
TGCTATACATGTTTCTACAGGTG
3' ss Score
9.75
Exon sequences
Seq C1 exon
GGAGAAGTATGCGGCCTATGTGGAAATTTTAACGGAGATGGAAAAGACGACTTCACCACTAAAGGTGGTGTGCAAACTTCAAATGTAATTGAGTTTGTTGACAGCTGGAAGCAGAAAACCTCCTGCCCTGATGCTGCACCAGACTTTGACCCATGCGTTAAGAACCTTTATAGAGAGGAATGGGCAGTATTAAAATGTAGCATCATAACGAGTGATACATTCAAAGACTGCCAAAAAAAG
Seq A exon
GTACGGATCGAAACCCTTTTGCATCTATAAATGAATTTTCAAATAGTTTTCTAAACAGTGAACCAAGTTACAGCATGTATAAAAAGTATTGATATGTACTGTTTTGTCAGTATTCTCAACATTTTTCTCATATTTTGAAAGATGCTGTTGACTTGAACAGATACTAGTAGCAACCAAGCTAAGCCACACATGCTGTACAAAGGAAACAATACTAATTAGTTTAAAAATCAAGTTGTGCAATAAAATGGAAAGATACAGTATTGAACACATAAAGAAAATATATAAGAGAAGGCTTAAAAAGCCCAGACAGCAGCTGTGAAATCTCTCAGTAGTTATTCAGCAACCCTGCCTCTCCTCAGTGTAATTTAATATTAGCTAGTATTAATATTCACTACCAATACCTCATTGCTTGGATGATGAAAACCAGGGTGGACATTTCAGCAAGACAATGATCCCAAACACAGAAAAGGAACCTCTCAATTGGTTTTAAAAAAACTGCTAAAATGTCCTGACTTGAATTCAGTAGAAAATAAAATCAGACCAAAGATCACAGAAGCGAAACACAAAACCAGCAAGATTTGATAACTGTTGAAGTCTGGAAAAAAAATCACACCTGGGCAATGCATGTAACATTCTCTCTATCATCTCTATACAAGATGCCCTTGAGGCTGTCATTACCAAAACAGCCTTTTATACAAAGTATTAAATATATTTTAGTAGTTCATTACCTTTTCCCTGCTGTCATATCATTGTTATTACATTTAACAAAATTTTCAGATTGTTATAATAATTTTTTTATTTGTAGGCTCCATGTCACAACTTCTTTAGAAATATATTTACCAGAAATCAATACTTATTTTACCTGCTATACATGTTTCTACAG
Seq C2 exon
GTGGATCCAACACCGTATTATGACAACTGTTTGAAGGACACGTGTGCATGTGACACTGGAGGAGATTGTGAGTGCTTGTGTACGGCTGTGGCTGCTTACGCTCAAGCCTGCAATGAGGCTGATGTTTGTGTGAACTGGAGAACACCTGATTTCTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078994:ENSDART00000154598:15
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:
PF0009420=VWD=PD(16.7=29.6),PF087426=C8=PU(28.0=25.9)
A:
NA
C2:
PF087426=C8=FE(69.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGTATGCGGCCTATGTGGA
R:
CTCATTGCAGGCTTGAGCGTA
Band lengths:
354-1237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]