DreINT0095461 @ danRer10
Intron Retention
Gene
ENSDARG00000015349 | mfge8a
Description
milk fat globule-EGF factor 8 protein a [Source:ZFIN;Acc:ZDB-GENE-050327-9]
Coordinates
chr7:48516797-48517866:-
Coord C1 exon
chr7:48517679-48517866
Coord A exon
chr7:48516953-48517678
Coord C2 exon
chr7:48516797-48516952
Length
726 bp
Sequences
Splice sites
5' ss Seq
CAGGTCCGA
5' ss Score
4.4
3' ss Seq
TGTTTTCTTTTGTGTTGCAGCTG
3' ss Score
11.31
Exon sequences
Seq C1 exon
TCGGCTGCACTGATCCACTGGGCATGAAATCCCGACTCATCTCTGATGTTCAGCTCACAGCATCTAGTACTTTCCGCACCTGGGGTATAGATGCTTTTACCTGGTACCCTTTCTACGCTCGTCTGGACAAGCAAGGCAAAACTAATGCATGGTCAGCAGCTAACAACAACCGCTCTGAGTGGCTCCAG
Seq A exon
GTCCGACTGTGAAGTGTCATGACTAGTTTTGTAATTCTTTCTGCAGTTTTTTTCCTGTCTTACAGTGCTCAGCATATATAAAAGTACACCCCTCAAAAATCTCTCTTTTAAATTCACATTTTTTTTTATTAGGAAGCTATACAATATTATATTTGTGCATATACATAAGATTATCCAGTATTGAAGCCAAATATGGAGCTTATCTAACAAAATAACTTACGATAACGGCCAAAAAACTAGTACAGCCAAATTTATGTCATAGATAAATATTAAATACACATTTTTAAAAAAATGAAGAATTTAGTCGAAATTTTGTAAGTTGTAATTTATTTTTGCAATATTTTGCTTGATTTTAATAGTATTATCTTTTCATTTTCTTGTTTGGTGAGTAAAATATTATTTTAATAAATATATCTGTTTAATAAATATGTTTTGTTTAAATGCACCAAAATATATTGCCTATATTTATTGAGAAATGGATACAAATACTCATTTTTAAAATGAGGTGTACTCAATTATGCTAAACATTGTAACAAATAGTTCTGTGATGGATTAATACCTTGAAAATGTAGTAATTGTGTTGCTATAAAACTTTCATCATGAGTTAATTTAGTATTGTAACCAAAAAGTAAGTAACCAAACCTGTTGGTTTTTTTTTAGCTTTAACATCAATGATTTTGCAAGTAATTGAATATCATGTTTATTGTGTTTTCTTTTGTGTTGCAG
Seq C2 exon
CTGGATTTGGAGAAACCTGTAAGGGTCACAGGCATCATCACTCAGGGAGCAAAAGACTTTGGAGTTGTGCAGTTTGTTTCGGCCTTTAAGATCGCTTACAGTGATGATGGAAAGTCCTGGAGCATTGTGAAGGATCAAGTAACAAAAACAGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000015349:ENSDART00000139400:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=PU(32.1=66.2)
A:
NA
C2:
PF0075420=F5_F8_type_C=FE(36.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGCTGCACTGATCCACT
R:
TTTGTTACTTGATCCTTCACAATGCT
Band lengths:
334-1060
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]