GgaINT0026864 @ galGal4
Intron Retention
Gene
ENSGALG00000006702 | MFGE8
Description
lactadherin isoform 2 precursor [Source:RefSeq peptide;Acc:NP_001264040]
Coordinates
chr10:12531620-12532023:+
Coord C1 exon
chr10:12531620-12531775
Coord A exon
chr10:12531776-12531883
Coord C2 exon
chr10:12531884-12532023
Length
108 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
CTGCTTCTCTCTCTCCGCAGATC
3' ss Score
15.4
Exon sequences
Seq C1 exon
ATCGACCTTCGGGACCAGAAGAAGGTGACAGGCATCGTTACGCAGGGAGCTCGTGACTTTGGCCACATCCAGTACGTGGCAGCCTACAAAGTGGCATACAGTGACAATGGCACCTCCTGGACTGTGTACAGGGACAGCCAGACCAACAGCACCAAG
Seq A exon
GTATGGGGACAGCGAGCTGCGGGGGCTCGGGGACACCTCCCTGCTTGAGGGCCGTGCGTAAATGGCGTCGGGGTCCCCGTGCTGCTGACTGCTTCTCTCTCTCCGCAG
Seq C2 exon
ATCTTCCACGGCAACAGTGACAACTACTCACACAAGAAGAACGTCTTTGATGTGCCCTTCCATGCCCGCTTTGTGCGCATCCTGCCCGTGGCCTGGCACAACCGCATCACGCTGCGTGTGGAGCTGCTGGGCTGTGACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006702:ENSGALT00000010834:9
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=FE(36.4=100)
A:
NA
C2:
PF0075420=F5_F8_type_C=PD(29.3=87.2)
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:
ACCAGAAGAAGGTGACAGGCA
R:
GTGATGCGGTTGTGCCAGG
Band lengths:
253-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]