GgaINT0124737 @ galGal4
Intron Retention
Gene
ENSGALG00000009079 | MAN1B1
Description
mannosidase, alpha, class 1B, member 1 [Source:HGNC Symbol;Acc:HGNC:6823]
Coordinates
chr17:337904-339481:-
Coord C1 exon
chr17:339291-339481
Coord A exon
chr17:338025-339290
Coord C2 exon
chr17:337904-338024
Length
1266 bp
Sequences
Splice sites
5' ss Seq
TGAGTAAGT
5' ss Score
8.82
3' ss Seq
GGAATGGTTTTAATTTACAGACT
3' ss Score
5.01
Exon sequences
Seq C1 exon
AAAGCTGTTGATGAGGTGATGAAACATGTTCACACCCTTTCAGGGAAAAATGATGGACTGGTGCCTATGTTCATAAACACCAACAGTGGGCAGTTCACTCACTTAGGTGTTTATACTCTGGGAGCCAGAGCTGACAGCTACTATGAGTATTTACTCAAGCAGTGGATTCAGGGTGGGAAAACAGAAAATGA
Seq A exon
GTAAGTTCTTTCTACTTGTCATACTGATATGAAAATGATACAAGTTGTAAACATTTCTGTTGTAGTTTATTGCTGAAAGAAATAAGATGTGTATATGTAACAGTCAACGTAAAGTAGCTCAGACCAGGTGTATGATGACCTATGGTAAGTTGAAGTTAAAACAGCTGGAGAATTGGACTTGCTTTCAAAATGTCTTCTCATAATACTGTTTTTCATCATCGCAGCAGATGTAACGAACGCTACAGACAGGAGAATCAATTCAAGTCTTTGCACTAAATATCGAGCATAAACAGGCTGCCTTTGGAAATGACAGCTGCCTTTCACCAGCTGTCCAAGCATTCCCTGGGTTTGTTAGGGAAGGACAAGTCCTACTAGATGATTGTAGTGGGAGGTTTGGTCTGTAAGGTGTAACTTTTTAAGAAGTTTGACATTTGTTTAAGCATTACTTTAGGTCTCTTTAAGCGAAGTTACAAAACCATAACATCCTCTTATCTGCCCTGGCGTGGCAGTGGAAAAGTGGAAAAGAATGTTTATAAGGAGTAGAGGAATTAGAGATGTTTGAAGGTTTCCTTCAAAACAAGGGGGAAAAAAATGAAGCAGTTTTTGTCCTTATAAGCTAATTGTGTTGGACGTGTTTCATGTCAGTGGATTCACTTCATCCAGAGAGGCAGTGTGCCCAGTGAGGCACCGTAGAGCAGATGTATCTATCTCTAAGTAGTTTGCATCATGACTTTTTACAAGCCATGCCTTACTGTAAACAGAGAACCATTGTCTTTAGGCCATGATGGTATTCTGTGGGCCTCAAAAGGGAATTGCAAAATGATTTTTTCATATAAAAATACTTAAAACAATGGAACATCCAGTTAAATACTGTGAAGAAGTGATTCATAATGTGTGGTCAAACACCGGAAAAGATTGCTCAAAATCATTGCTTAGGAGATGCTCAGAAATTAACTGGATAACCCTCCAAGCAACCTGGTAAAACCCAATCTGCTTCAGAGCAGGAGGTTGCACTGTGCAGATGTCCAAGACATCATTACCAGCTGGGGCTTTCTGTGATTACAGTACTCCTAAGGATTTCTGAAATAAAATCTACTTGTTGTTTGGAAACAGAGTTGGAGTTATGTTCGCTTTATTACTTAGGAGTTACTTGAAAAACAAACCCAACATAGCTATGTGGTAGCTGTAGCTAATAAATGTACATCCGCTGTGATGAAATGGATTCTGTGTGTATGTGAGCCAACTGGGAATGGTTTTAATTTACAG
Seq C2 exon
ACTGTTGGAGGACTATATGAAAGCCATAGAAGGCGTGAAAAAGCATCTTCTTCAGAGATCACAACCCAAGAAGCTTACCTTTGTAGGAGAGCTTGCTCATGGCCATTTCAGTGCCAAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009079:ENSGALT00000014774:10
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:
PF0153215=Glyco_hydro_47=FE(14.3=100)
A:
NA
C2:
PF0153215=Glyco_hydro_47=FE(9.1=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:
AGCTGTTGATGAGGTGATGAAACA
R:
CATCTTGGCACTGAAATGGCC
Band lengths:
310-1576
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]