GgaINT0124739 @ galGal4
Intron Retention
Gene
ENSGALG00000009079 | MAN1B1
Description
mannosidase, alpha, class 1B, member 1 [Source:HGNC Symbol;Acc:HGNC:6823]
Coordinates
chr17:334979-335614:-
Coord C1 exon
chr17:335417-335614
Coord A exon
chr17:335111-335416
Coord C2 exon
chr17:334979-335110
Length
306 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTCTTGATTTTCCTTTGCAGCCT
3' ss Score
10.69
Exon sequences
Seq C1 exon
GATCACTTGGTTTGTTTTCTGCCTGGGACTTTGGCTCTGGGAGCTCACAATGGATTGACTGCTGATCATATGAAGCTGGCCGAAGCCCTGATAGAAACATGTTACCAGATGTATGCACAAGTAGAGACAGGCCTGAGTCCAGAGATTGTGCACTTCAATCTCCATGCACAAAAGGGCCACAAAGATGTAGAAATCAAG
Seq A exon
GTGAGCAGCCAATCGGCATCAACTGTAGTTTGATGACTCCTCTTATCTCTACTCTGCTGCTGAATATCCTGGCCGCACACTGGTGATGTACTTTGTAAAGCGGCTTGTTCTGTTGCTACATTGCTTTGCAGGTGTAGGCTAGCCCTTGTTTTTATTTACCCCTGCAGAGTATTTAGCTTCTAAATTATGTGTAGAAAACTCTTTCAGGGTGGATGGGGATGGGAGTTGCTGTTTCTCCCTCTGCATGTGCTTTTGGAGGAACTACTGGTCTGAATTGTTCTTGGCTTTCTTGATTTTCCTTTGCAG
Seq C2 exon
CCTGCAGACAGGCACAACTTACTGCGACCAGAAACTGTGGAAAGCCTTTTTTATATGTACAGATTCACCGGAGATAAGAAATACCAAGACTGGGGCTGGGAAATCTTGCAGAACTTCAATAAATACACACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009079:ENSGALT00000014774:12
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=0.045
Domain overlap (PFAM):
C1:
PF0153215=Glyco_hydro_47=FE(14.8=100)
A:
NA
C2:
PF0153215=Glyco_hydro_47=FE(9.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTTGGTTTGTTTTCTGCCTGG
R:
CCGTGTGTATTTATTGAAGTTCTGCA
Band lengths:
327-633
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]