GgaINT0057274 @ galGal3
Intron Retention
Gene
ENSGALG00000020492 | MUC6_CHICK
Description
NA
Coordinates
chr5:16135915-16136993:+
Coord C1 exon
chr5:16135915-16136066
Coord A exon
chr5:16136067-16136851
Coord C2 exon
chr5:16136852-16136993
Length
785 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
GTTTCTCTGTTTACTCTCAGCAC
3' ss Score
6.99
Exon sequences
Seq C1 exon
ATTCCTACAAAATGTGAATCAGGCTGTGTCTGTGCTGATGGGCTATATGAAAATCTTGATGGCAGGTGTGTTCCGCCTGAGGAGTGTCCTTGTGAATATGGAGGCCTTTCATATGGAAAAGGTGAACAGATCCAAACTGAATGTGAAATCTG
Seq A exon
GTAAGAGTCAAACCATTTTCCACTGTTGAACCTCAGTTTCACTAATCTGTGCAGGTATATAACAAAAGCATTTAGTTGATAGGAAAGTAGGAAGTGGCAAAAGCTGAAAGCTGAACAGAAGGAATACAGTGACAAAGCATAGAGGTGGTAAAGAGAAGCTAAAAAATTTGCCAGTATGTTTGTATACATGATTCTGACAATAAATATGTACAAACGAAAGAGTCATGATCTACTAGTCAGCTGTATAGGCTTCAGGGATATTTATGCCACCTCTATATCCAGGGAATAAGGGCATGCATTAGGGACTTTAACTGTAAACTGCACAAGGTCACGAATTATCAACTCCACCTAAATAAAGGTGAGCACTGTCTTCCTCCCTTTCTTTAGATAAAAACAGCCTCCCAGAAAGATTACTTGCATCTCTTTAGCTGCATTCTCAGAGTACTTTGTTCAATTTCTGTTTTTAATGTAATATTAAAAACACCAGCACCCAAAGCATACATAACTGTGACATCTTTTCTCATAAGCAACTGAAATGAATGAACTTATGTTCTTTCTTCAAAGGAAAAGAAAGCAAAAGATACTTAACGTATCTTCTTCATCATTAATTAATTTTCTTAGCAATCTGTAACTTTTATGTATGGTTCCTATATTAAATGTGACTTGGTCACAGTGTGCACCAGACTATTTAAATGAATGTCATATCTATAAAAATATATGCATGTAAAAAGAAATAAGGTGGTATTTCTTTGGAATCTAATTATGGTTTCTCTGTTTACTCTCAG
Seq C2 exon
CACTTGCAGAAAAGGCAAATGGAAATGTGTTCAGAAATCAAGATGTTCCTCAACATGTAATCTTTATGGAGAAGGCCATATCACCACTTTTGATGGACAGCGTTTTGTGTTTGATGGCAACTGTGAATACATTTTAGCTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020492:ENSGALT00000032694:18
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:
PF0182612=TIL=PD(43.8=54.9),PF0009313=VWC=PU(40.8=39.2)
A:
NA
C2:
PF0009313=VWC=PD(66.1=85.4),PF0009420=VWD=PU(18.4=58.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCCTACAAAATGTGAATCAGGCTG
R:
CATAGCTAAAATGTATTCACAGTTGC
Band lengths:
294-1079
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]