GgaINT0144048 @ galGal4
Intron Retention
Gene
ENSGALG00000000461 | MRC2
Description
mannose receptor, C type 2 [Source:HGNC Symbol;Acc:HGNC:16875]
Coordinates
chr27:2412671-2414264:+
Coord C1 exon
chr27:2412671-2413069
Coord A exon
chr27:2413070-2414090
Coord C2 exon
chr27:2414091-2414264
Length
1021 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
GGGACCCTCTTCTCCTGCAGAGA
3' ss Score
8.7
Exon sequences
Seq C1 exon
ACTCCAAAGTCTTCCTCATCTACAACGTGGGTGCACAGGGCTGCCTGGAGACGAAGGACTCGCTGGTGCGGCTCGCCAAGGGCTGCAACGCCAGCTCCCCGGCCCAGCAGTGGAAATGGGTCTCACGCAACCGCCTCTTCAACGTGGGGGCCATGCAATGCCTGGGGGTGTCGTGGCACGGGGGCAATGCCACGGCTGGCCTGCACCCCTTGGCCACCTACGAGTGCGACCGCGAGTCTGTCAACATGCGCTGGAGCTGCCGTGGTCTCGGGGAGCAGCTCTCACAGCACCTCGGGGCCCGACCAGCCAACACCTCGCTGGATAGGGGTGACCAGGCACGCAGCTCACAGTGGAGGACATATGGAACTGAGGAGGATCTGTGCTCCGTGCCCTATTCTG
Seq A exon
GTAAGGCCCACTTGCTGGGCTCACCATCTGCGTCCCTTGGTGCTTCATAGCATCGCAGCATGGTTGGGTTGGAGGGGACACAAGGCCCCCACAGGTCTTACCCCTTGCTGTGGGTTGGTTGCCCCCCTCCAGATCGGACCCCGGAATTGGATGCAGTATTCCAAATGGGACTTCCCTTCTGTTAGTGTTCTTTGCCAATCTGAATAATTCAGTGGTTCTGTATCAGCACAGTGGTGCAGTCGCTGTCGCTGGAGTGGCACTGAGAGAACATGGTTTAGTGGGCATGGTGGGGGTGGGTTGGTGGTTGGGCTTAGAGATCTTTTCCAACCTTAATGATTCTGTGATTCTCTCTGTCCCCATTGCCTTGATGCCTTGCAGACACCCAGGAGCCATTAGCAGCAGTGTTAGCCCCTAAGCAAAAGCAGTCCCAAGCTAAACACCATGCAGTTCTTTGCCCCAACCCTGCAGTGGAATGGGGGAGAAAAGATAAAGAAAATAAGAACTTGTGGGTCGAGATAAGGGCAGCTTAGTAAGGAAGAAAAAATAGGGAAAGAAAAAGAAAAAAATCAACAGTAGCCAAAAGAATAAACAAAGCAAGCAATGCGCAAGGCAATTGCTCACGACCAGCCAGCTGATGCTCAGCCAGTTCCCACAGCCCCCACAGCCAACTCCTCCAGTTTTATCATTCCACATGACATCGTATGGTCTGGGATGTCCCTGTGGCCAGTGTGGGTCAGCTGTCCTTCTGGTTCTGTGCCCTCCCAGCTCCCCCCTGGTGGGGCAGTGTGAGGAGCTGAGTCGTCCTTGACTCAGTATAAGCACTGCTCAGCAACAAGTAAAACATTACAGTGTTATCAACACTATTCTCATCCTAAATCCAGAACACAGCTCGTAGGGAGAAAATTAACTACCCCAGCCAAAGCCAGGACATCCAGGCACCCCTTGGTCCCCCAGTCAGGAGAACCCTCATCCTCAACTCCCCCTGGCTGCAGCCTCATGGGGGGACCCTCTTCTCCTGCAG
Seq C2 exon
AGATCTACACCATCCAGGGCAACTCACACGGGAAGCCCTGCACCATCCCCTTCAAGTATGACAACCAATGGTTCCACGAGTGCACGAGCACAGGGCGGGAGGACGGCCATCTCTGGTGTGCCACCACGCAGGACTACGGCAAGGATGAGCGATGGGGCTTCTGTCCCATAAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000461:ENSGALT00000000627:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.145 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004014=fn2=WD(100=71.2)
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:
TGGAAATGGGTCTCACGCAAC
R:
TACTTGAAGGGGATGGTGCAG
Band lengths:
347-1368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]