GgaINT0124736 @ galGal3
Intron Retention
Gene
ENSGALG00000009079 | MAN1B1
Description
NA
Coordinates
chr17:719118-720453:-
Coord C1 exon
chr17:720265-720453
Coord A exon
chr17:719309-720264
Coord C2 exon
chr17:719118-719308
Length
956 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
TATACTGTTCTTTCTTTTAGAAA
3' ss Score
10.68
Exon sequences
Seq C1 exon
AAAGACATTGGGAACAGGCTCATGCCAGCATTCAAGACTCCTTCCAAAATTCCGTACTCTGACGTCAACATTGGCCGGGGCACCGCACACCCACCCCGCTGGACGTCTGACAGCACTGTGGCAGAGGTGACCAGTATACAGCTGGAGTTCAGAGAGCTCTCTCGTCTCACTGGGGATGAAAAATACCAG
Seq A exon
GTATGGAAGGACCAGATGATGTTATTCCTTTTTTTTTTTTCCTTTTTTTTTTCTTTGTACTTATCTTCAGCACCACCAGGACTCTGATCTCCCTGATGTTACATGAGTTATGAAGCTATAGGTGAAGAAAGAAAAATTCCAATCATTCCAAGTATTTTCTTAAGTACCAAAAAGTAATGGTGGAGGCAATTATTTTTCTTCCTCAGGAACATCTTTTTATTCTTAAAAAAACAGGACAACCATCCCCTCGCACCTGTCCCTTCACTCTTAGGATTGATATTTCTGCTTGACACTACATTATCAGATCTGAAAAAAAATCAGACGTGGGCTGTGAAGCTGTGCATATCTTAATGTTTTTAGAATTCTGCATGTGACTTCTTCATGCCATTATGTAAATTCTATGAAAAAAATACCGTTGTTGCCCTTCACGGGATTAAAATGGCAATAAATTAGATTCTGTGTCATGGTATGAGAATTTATTTAAAACAAAAATAATTCCGTAGAAAAGAATAATTTCCACTGTTGTATTTTGGTAATGTTATTTTGTTGTTTTTAAGCTGTATCCGGAGCTCATGTTTTGAATAGTGCTGTTGTTTCTTTGGGGATAACATGGTTCATGCAGTTGTTTTAGCTGGACTTTGCAAATATCAGTGAGTCAGATCGTAGTCTCACACTGAAGTACTGGTTTTTGAGTGGGCTTTCTGCACTCAGGAATACACTTGAGCTTTGTATTTGAGAAGGAAAGAGTTTTAATTATTTCAGAGTACTTAAACATACCGAGAACATCAGGCTTTGATAGTCAGAAAGTTTGAAATGCTGTGTTTATTACATCCCATGAGCTGAGCTTGTTTGCAGAAGGATAACTAAAGATTTGTTACTGGCCGGAAGCTACTGGCCACAGTTTTTTGTGTCATTTGTATGTGTGTAATTTATGTTTATACTGTTCTTTCTTTTAG
Seq C2 exon
AAAGCTGTTGATGAGGTGATGAAACATGTTCACACCCTTTCAGGGAAAAATGATGGACTGGTGCCTATGTTCATAAACACCAACAGTGGGCAGTTCACTCACTTAGGTGTTTATACTCTGGGAGCCAGAGCTGACAGCTACTATGAGTATTTACTCAAGCAGTGGATTCAGGGTGGGAAAACAGAAAATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009079:ENSGALT00000014774:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0153215=Glyco_hydro_47=FE(14.1=100)
A:
NA
C2:
PF0153215=Glyco_hydro_47=FE(14.3=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:
GCTCATGCCAGCATTCAAGAC
R:
CCACCCTGAATCCACTGCTTG
Band lengths:
348-1304
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]