GgaINT0026863 @ galGal4
Intron Retention
Gene
ENSGALG00000006702 | MFGE8
Description
lactadherin isoform 2 precursor [Source:RefSeq peptide;Acc:NP_001264040]
Coordinates
chr10:12530563-12531775:+
Coord C1 exon
chr10:12530563-12530747
Coord A exon
chr10:12530748-12531619
Coord C2 exon
chr10:12531620-12531775
Length
872 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CAGCCCCATCTCTATTCCAGATC
3' ss Score
8.33
Exon sequences
Seq C1 exon
GTTGCTCGGAGCCTCTGGGCATGAAATCCCGCCTGATCTCTGACCAGCAGATCACAGCTTCCAGCGTCTTCAAGACATGGGGCATTGATGCCTTTACCTGGTATCCCCATTATGCCCGCCTGGACAAGATGGGCAAGACGAATGCATGGACAGCACTGCACAATGACCAGTCCGAGTGGCTGCAG
Seq A exon
GTGGGTAAGGGCTGGGAGGGCTCACGGAGCACCTCTGTGCACCCCAGCTCAGCTCCTCCCCTCTGTTTTGCAGCAAGGATCAGGTTTGTGCTTCTATTCCTGGTCTGGAATGGGAACAAATAGTTCTGAAATTTCCTTCTCGGTTTCCTTTGCTCCGCTGTTTTTATACTTTTCACATGATTTCATGACATAATGGGACAAAGCTGTTTAGATATTTGTCCCGCTTTTAATTTTATTTGGGGAATGATTAAAAGCAGCTGCTCCTCAGCCCTGAGTGAAGCAGCTTATCGGGACATCTCCGGCTGGGTTGCGGTGACACGCTGCGCTGGGCTCTGGCACTGAAGGCTGTGTGCTCATGGACGTGTAGGTAGATTCACATGTACACCCATAGATATACAAACATACACGTATATGTGTGGCTGGTATGGCCCTCAATGAACATAAAAAAGGAATAAAATGAAGGAGACTTTCAGCTCTTTAGCTGCGTCACCCCGCAGTGTGCCAGCAGCAGTAACGCAGTGTGGCAGGGCAGGAAGCAAAGCAAACAGAACAGAAACCATCTCCCTTGCAGCCCAAATGTCAGCCTGCATTCAGCTGCGTATTTTCTCGTCCACAATCACTTGCCATTGGAAATGCATTTCCTCTGGGAGTCCTTTTTAATTATTATTTTCTTCAAATGGGGATTTTTGCCATCATTCCCACCTTGAGCTCTCCGGCACGAGGTGCCAAAGCAGCCGCAGTGATGTGTGGGGAGCAGTTCCCTGCCCTGAGGGTGCTCAGGGGTCAGATATTTCCTCGCAGCATTTCATTAGTCCTGTTGGGGCAGGGGTTGCTGAGCAGTCCCCCGGGACTCAGCCCCATCTCTATTCCAG
Seq C2 exon
ATCGACCTTCGGGACCAGAAGAAGGTGACAGGCATCGTTACGCAGGGAGCTCGTGACTTTGGCCACATCCAGTACGTGGCAGCCTACAAAGTGGCATACAGTGACAATGGCACCTCCTGGACTGTGTACAGGGACAGCCAGACCAACAGCACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006702:ENSGALT00000010834:8
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:
PF0075420=F5_F8_type_C=PU(32.1=72.6)
A:
NA
C2:
PF0075420=F5_F8_type_C=FE(36.4=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:
TTGCTCGGAGCCTCTGGG
R:
GTGCTGTTGGTCTGGCTGTC
Band lengths:
336-1208
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]