GgaINT1017802 @ galGal4
Intron Retention
Gene
ENSGALG00000006702 | MFGE8
Description
lactadherin isoform 2 precursor [Source:RefSeq peptide;Acc:NP_001264040]
Coordinates
chr10:12531884-12534611:+
Coord C1 exon
chr10:12531884-12532023
Coord A exon
chr10:12532024-12532796
Coord C2 exon
chr10:12532797-12534611
Length
773 bp
Sequences
Splice sites
5' ss Seq
CGAGTAGGG
5' ss Score
1.5
3' ss Seq
CCTTTTGATCACATTCCCAGAGT
3' ss Score
5.22
Exon sequences
Seq C1 exon
ATCTTCCACGGCAACAGTGACAACTACTCACACAAGAAGAACGTCTTTGATGTGCCCTTCCATGCCCGCTTTGTGCGCATCCTGCCCGTGGCCTGGCACAACCGCATCACGCTGCGTGTGGAGCTGCTGGGCTGTGACGA
Seq A exon
GTAGGGGCGCGGGGCGGCACGTGGAGGAGGGACAGCCCCGTCCCCATCACCCGGCCCACACCCTGCCCACCCCGCACACCTCCTGCTCACACCTCCCTCTTCTCCTCCCCGAATTTCGGAGGGAGGCTCCGGGCGCTGCCTCGCCTCAGGGGGTCCCCTGCCCTGCGCTGGGGTTGCAGCACTGCACTTTATGGGGCTGCTCCGGGTAGAACGGCTCCCGCCCTTCTGCCCTACAAGCTGTGAGTGAGACCCCCTCCTCTGCAAATGGATCTTGGCCGTGGGACCCTATCCTGCACGCAGGGCTTGGCTGCAGCCTCCCCTATGCCTGGAGATGACTCCTCTCCTTTTTCCCTCTGCTTCCAGCAGTCAGCAGCAGTGCCCTGCGTGCACCGCACCAAAGCTCGGGGCTCAGCCATTGCGGGGGACCAAACCTATCCTCTGCCATCCCTCCTCCTCCCTGCATGGCCGCGTGAAGGAGCTGCAGACCTCAGCCCTATCCCTTCTGCCAGGCCCCGGGGCTCTCTGCGGGCTGTGTCAGCGCTGCATAGTGTGAGGGGAGTGCTGAGAGGGGGAGAGGCTGCTCCTATCGGCAGTTCTGCCTGCTGCACTGATCTTGTGGCAGCTGAGAGCCCTCCCCAGCCCCCAGGAGAGCAAACCCGTGGGTCTGTGGGGTCGAGTGGTGAGGGACACCCACGCTGGGCACCCTGCAGCCCAAGCCAAGAGGGTCTCAAAAATGTTTTGTTTTTTTTTTTCCCTTTTGATCACATTCCCAG
Seq C2 exon
AGTGCCAGCATGTCATGGAGCAGCTGGAGGAGGTGGTGGAACAGCCCCAAAACAGACCCCTGATCCTTTTTGTAACCTGATCTTTCCCTTTTTGGGGTGGCGATGCTGGAGCTGTTGGGATGGGCAGCGGGAAAGCGTTGAGCCAGCACCGGCGAGTGGGATGGCAGCTAGGAAAGCGTTGGTGACACCACTGTCCCCATAGACTGGTATGGGATGTGACCACAGGGCTGGGCTGGCTTCGGGAAGGACCGAGGGGACCCAGGTGGCACGGCCTTACTCCAGGGTATTGTTGACAGTATTAAAACTGAAACTTTGGGTTGTTGGCTCACTGCTCTGTGCTTGCCGTCTCTCCGAGGCATCCCTCCTGCCCTCACACCCTCCTGGTTCCCTTCCTTTCTCCAAAAAACACTACCAAGGCTGTGTGCATCCTCCCCCCGGCCTCCACCCCATCCCAGCTGCTGGAAGCCGTGCCTGCAGCTGGCCGAGCACAACGCGATGGGACGTGGGGATGGGAAACTGCTATCAGCACCCCACACCCTGCGCATCCTCCTTTGGCTTTGATCCTGGAGCAGATCCCCAGCTTGGAGCGAAACCGCTCTCGGAGCTGCAGCTTTGAGGAAGCTGTGGCCAAACGTGGGCACGGTGCAGGGTGGGGGCTGCTGGTTGGGACCCCGTGTTTGTGAGAGAAGGGGCACTGGGGTGCGGTGGAGGAGCTCTGCCACTGAGTAGGGACCCTGAAGCTGACATGAAAGGCCCAGGGCCCCCTGCATCCCTCCGTCACCTCCTGAATTCACCACAACTGTGGCCGCTCGGTGGCAAATAGCACCCAGAGCCAGAGCAGGGAGGACAACGCTCCCACCCAGACGTGCCCCCCTTATCGCCGGGAAGCGGCAGCAGAGATAAAGGCAGCCTGCTCTGAGTCTGGCGAGACAGCCCTGAGCTGGGGAAGGCTCTGCAGGGAGGGCAAAAGGAGCCGAAGCCACATATCACAGCAGCTGTCATCACTGCCCCACTGAGGGACGCCGAGCCCTTCCCTGCCCCGCGACATTTCCTTCCTCCTGCCCAGCACCGGGGCTGCCCTTGAGGGCAGTGAGGGCTCCCTCACCCCCTGCAGACCCCTATCCCTGCCCCTCGGTTGCTGTTCCTGGCGGCAGGAAGGCTGGCATGCTGCGGCACCCCACTGCCCGCCTGCAGGAAGCAGCCGCAGCACAGCATCCTCTCACCAGCACCCGGAAACCCAGTGCTGCTCGCAGCCCCTTCCATTCTGCAGCTGATCTGGGTTTCCCTCCCCACTTCCAGCCTCAAGCACAGTTTCCCACTGGAGCCATTGGCAGAGGCTGGGCCATGCCCTGTGCAAGCAGCATTTTGCCAAGAAACCCCCCACCAGGACCAGGTCGAAGCTGCCACTCACCAGCTCTAAGGTTGAGCAGCCGGGCTGACACCCTTATGGCTCTGTTTGACCCATCCCCAAGCACACACCCATCCCACACACTGCTGGGTTGGATCTGCGCTGACCCCACAGCGCTGCTTGCCCCACAGACCCACCCGGGGCTATACCTGGGGAGCTCAGCCCCAAGCCCAGCTCCGGGAGCATCCTCCGAGCACCGAGGATGGGGGTCACGAAGCACCCTTTGTCCCCTCTCCCAGGGACGGCTCTTTGTGGGGTGCTTTGGGCGCACGGCAGCTTTTTCCTCCTCTAGCAAACAATGGGGTGGCAGCGCCAAGGAGCAGCGTGTCCTGGCAGGAGGGGACCGTGCTGTGGCTGCTGGGAGAGGTAATCACCCCATTGTGGGTGCGGTGGCGCGCCGGCCGTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006702:ENSGALT00000010834:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.134
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=PD(29.3=87.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACGGCAACAGTGACAACTA
R:
TGGTCACATCCCATACCAGTCT
Band lengths:
357-1130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]