GgaINT0124735 @ galGal3
Intron Retention
Gene
ENSGALG00000009079 | MAN1B1
Description
NA
Coordinates
chr17:720265-721229:-
Coord C1 exon
chr17:721081-721229
Coord A exon
chr17:720454-721080
Coord C2 exon
chr17:720265-720453
Length
627 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
TGCTCTTGTGTTTTCTTTAGAAA
3' ss Score
10.06
Exon sequences
Seq C1 exon
AGTTTGAAGAAGCAAGAAAATGGGTAGCAAACGATTTAGCCTTTGATAAAAATGTGGATGTGAACCTGTTTGAGAGCACTATTCGTATTCTGGGTGGCTTACTGAGCACCTACCATCTCTCTGGAGATAGCCTCTTCCTGGAAAAAGCT
Seq A exon
GTGAGTGATTAGTTCTGGAAATTAAATTGGATTAGTATATCGTAATTGAAAAAGTTGGGAAAGGGTTCATCAGGAAGCTTAAATGTTGCCTTTTTGCAGCCGTTTCATAATCAGAATGGTGGGAGAGGCATTTACCATTAATTTTTCAAGCCTGCACTTGTTTGCTCTCTGAATCAACTTAGAGCTCCACTGTGTTTTACCTGGTACTATTTTAGATGGGCCTCTTAAATTCTTCTGTTGATGAAGAGCTGACCATTGTAAGGAATTTTATGAAACAAAAGCTTAAATAAATGTCTTGAAAAGAGTATTGGTCACTGCTTGTCACCTTTTCAGTGCATCTTGACAGCATCAGCCACCTCCTTAAATTAGACAGAGTCAATGATTTCAGCATTAAGTCATGTTGTATAGGGACTGCAGGCTTGGTTGAGGCATACACTGCAGGAACAAGGTAGAAACTCTAGTTATTCTTCCAAATTAATCTGCAACCATTTTAAATCCTTGTCTTTCTCTCACAATCTAAAGCTAGGCTGCTACTGTCCTCATCTGATTGTTGAAAGAAAACCTGAAAGTCTGCACGTGTTTATGTTTACTTTTCTTTTTTGTCCTGTGCTCTTGTGTTTTCTTTAG
Seq C2 exon
AAAGACATTGGGAACAGGCTCATGCCAGCATTCAAGACTCCTTCCAAAATTCCGTACTCTGACGTCAACATTGGCCGGGGCACCGCACACCCACCCCGCTGGACGTCTGACAGCACTGTGGCAGAGGTGACCAGTATACAGCTGGAGTTCAGAGAGCTCTCTCGTCTCACTGGGGATGAAAAATACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009079:ENSGALT00000014774:7
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=0.048
Domain overlap (PFAM):
C1:
PF0153215=Glyco_hydro_47=FE(11.1=100)
A:
NA
C2:
PF0153215=Glyco_hydro_47=FE(14.1=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:
TGAAGAAGCAAGAAAATGGGTAGCA
R:
CTGGTATTTTTCATCCCCAGTGAGA
Band lengths:
334-961
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]