RnoINT0091840 @ rn6
Intron Retention
Gene
ENSRNOG00000017510 | Mfge8
Description
milk fat globule-EGF factor 8 protein [Source:RGD Symbol;Acc:3083]
Coordinates
chr1:140846356-140848642:-
Coord C1 exon
chr1:140848458-140848642
Coord A exon
chr1:140846506-140848457
Coord C2 exon
chr1:140846356-140846505
Length
1952 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTCTTTTTTTTTTCCTGTAGGTT
3' ss Score
12.69
Exon sequences
Seq C1 exon
GATGCTCTGAGCCCCTGGGCCTGAAGAATAACACGATTCCTGACAGCCAAATAACAGCCTCCAGCAGCTACAAGACGTGGAACCTGCGTGCCTTTGGCTGGTACCCCCACTTGGGGCGGCTGGACAATCAGGGCAAGATCAATGCCTGGACAGCTCAGAGCAACAGTGCCAAGGAATGGCTGCAG
Seq A exon
GTGAGAGCGGGTGGGATTTGTGACCCTGCCCAGCCCCAACCGCTGCTCTCCAAGGGATTCCCCGAAAAGCCTTAGTTTTCTTTGTTTCTTTTTCTCTTTCTTCTTTCCAGGCTACCCATTTTCTCTTGATCCTGCTTTGTTGTGCTTTCACACTTGCACATGCACACACACACACATAGACACACAGTCACACACATACATGCACATACATATACACATACACACGCACTCACATGCACTCACACACATGCACACAGGCACTCACATACAGTCACACACATGCAGTCACACACATGTGCATGTACATGCACACACATACATGCACATACACACATATATGAACATACATACACACACAGACATACCTACACACATACACACCCATTCACACACACATAAATATACTCACAAACACACATACCTACACACATAAACACATGGACACACACATCCACTGCTCATACACACCCACTCATACATAAACACTCACAGACACACACATACATATACCTACACACACAGTGACACATACTGACACACGCACGCGCTCGTACACACACACACACACACACACACACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGTAGCACCGTCTCGTCAGCTATCACAGAGTTGACAAAGCTTGCCTGTGGGCAGCAGGGCAGAATGGCAGAGGGCACTTTAGGACTAAACCACTTCAGCAAAGCACATGTGTTCTCCCACTCAGTGTAACTGGGAAATCTCAGAGAGAATGGAAAACCAGAGGTAGAGAATGGAGAATGCAGATGGGGAAACTGAGTCCTGGCAGATTGTGTGGTGCTTACCTGCTGGTTGCGGGTGAGCAGGGCTTATAGCCTACATCTGGGGACTGCCTGTCCAGGGGTCAGTTTTCAGGATAGTCAGGGAAAGGACAAACCTAGGCCAGAGGTGCTCAGTCGGGGTCGGGTTCATCAGGAGCCACCCGCTCTTGGACTCTCTCAGGACCATGTAAGGCTCCAGGCAGCCTGACAGGTTTCAGAAGCAATTCCCACTCCTATAGGCTGTGGTCTCTCAGCCTGTTCATCACACCCCAGTATACATCTGATGCAGGACCTGGCAGAGTTGGCCAAGGCCCGGACCTGTGAAATACCCTTCACTAAGCTTTACTGTGCTGGAGTTCGTGGGTGTCAAAGTGGATCATTTATGTGCCTTTGTTTATTTTGACTTCACATCTTTGTCATATTGGAGATAGAACTCAGGGTCTTGAGCATCCTAGACCAGTGCTGTGCCACTGAACTATATCCCCTGTCCTTGGTATTTTGAGGCAGGTCGTTGATATGTAGTCAGGCTGGCCTTCTACTCCATTGTCAACCTCCCAAATGCTGGGGTTACAGGTGAGCACCACCACACAGGCTTTATCTTCTGGATGAGTGTCCTAGGGTTTCTACTGCTGGGATGAGACATCATGGCCAAAAAGCAAGTTGGGGAGGAAAAGGCTTATTCAACTTACACTTCCATATTGCTGTTCATCATTGAAGGACGTCAGAGCAGGAACCCAGATGGGGCAGGAACCTGGAGGCAGGAGCTAATGCAGAGGCCATGGAGGGGTGCTGCTTACTGGCTTGCTCCACATAGCTTGCTCAGCCTGCTTTCTTATACAACCCGTGGGTGGAAGCACTCACCATGGGCAGGGCCCTCCCCCATCAATCACAAATTGAGAAAATGCCTTACGCTAGACCTTAGGGAGGCAGCTTTTTTCCTCACTTGAGGTTTCTCCTTTCAGATAACTCTAGCTTGTGTCAATTTGACATAAGACTAGCCAGCGCGAGGAGGAAATAGGCTAACAGGTCATCCCCAGTGTGTCTGCCTTTACACCTTCTTGAAGAAGCTCCAACCTAGAATGATGAATGTTTTTTTTTTTTGTTTTTTTTCTTTCTTTCTTTTTTTTTTCCTGTAG
Seq C2 exon
GTTGACCTGGGCACTCAGAAAAAAGTGACAGGAATTATCACCCAGGGGGCCCGTGACTTTGGCCACATCCAGTATGTGGCATCCTATAAGGTAGCCCACAGTGATGATGGTGTGCAGTGGACCGTATATGAGGAACAAGGAACCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017510:ENSRNOT00000024253:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=PU(32.6=72.6)
A:
NA
C2:
PF0075420=F5_F8_type_C=FE(35.5=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:
GATGCTCTGAGCCCCTGGG
R:
TTGCTGGTTCCTTGTTCCTCA
Band lengths:
334-2286
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]