GgaINT0060906 @ galGal3
Intron Retention
Gene
ENSGALG00000014699 | MEGF10
Description
NA
Coordinates
chrZ:55270711-55272696:+
Coord C1 exon
chrZ:55270711-55270831
Coord A exon
chrZ:55270832-55272553
Coord C2 exon
chrZ:55272554-55272696
Length
1722 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAAA
5' ss Score
4.79
3' ss Seq
TAAGACTTTTTTTTCTGCATACA
3' ss Score
-0.23
Exon sequences
Seq C1 exon
CTGTGAGGATCTCTGCCCCCCGGGGAAGCACGGGCCGCAGTGTGAGGAGAGATGCCCCTGCCAGAATGGAGGCATCTGCCACCACGTGACCGGGGAGTGTGCATGCCCACCAGGATGGATG
Seq A exon
GTAAAAACCCTTTCTAAAATCAACAGTGCTCTGCAAAATTTCCATATTTCTAGATTTCAGGCAGCATCAGAAAAGAGCTGTGGATTAGAACATAAAATGCAGTCCGCCTGTAGCCAGGAGTAATAAGAAGTGTATTTCAGCATAAAGAACTGGAATAAAATACTTGAAAAACCATCTGTTGCTGAAAATCCTCCAGTTCTGCACTGCTGTTTTAACCATGTAAGGTCCTGGGAAGCAAGGGATGTGAATTATCCTTTGAATTTTGTCTAGAAAATGTTCACTTTGAGATAGAACATAATACTCTAGGGAGCCGATACCTCCTTAGAAAGACATTATGTATTTTTCGCAGGGTATTTTGCATCTATTTTCAAATGTATAGTATGCATTAAAAAAAAAAAAAAACAACACCCAAATTTTGAGGTATGGTGTTAAGTGATGCTAACAGAAACAAGACATCAGAACTTGACCATTGTCTTTTGACTTTCAACCCTCTGGTCAGTGGATAGGGAAAGATGCATACAAATGAAATTCCTTGTTTGCATGCAGGCTCCCTTACCAGACTGCCACTTCTGAGTTAGGAAGTTGGAAGGTGATCAAAAGGATGGAAAGTGTTTATTGAACTTCTAATTATCTCATGATATATGAGGAGGTCAGTGGTAACATGAGCTCTTCACCAGCTAGGGTACATCACTGTGAGCAAATGATGTCTAACTATGTAAGCACTGCTCACCTGTCAACCTACCTTGGATTATAGTAATTTTAACATTTATTCCATTTCGTGATGGAAGAACATAAATTACTGATCACAGGATACAGTTATTTGCATTTTGTCTTTAATTCCTCTACTGGCATCAATGCCACTAATGTAAAGACATACAGCATATGAAGAAATAGTGAAAATTTTGTGCCAGTGTGTATCTTAACTAATAAGTTACTATTTAGCTTTCAGATTAGTTATCCATTCCAAATAGCTATTTAAGCATAATTCAATGTTAGTTTTAGATTTTTCAATTTTGTGTGAAGCAATTTTGTTAACATAACCTTTTTTGCTTTCCATGTAAAGTTGGCGTAAAGTAGTCAAATACAAGCTCTAAAGTGTTTTATGGTAGCTAAAATTCCCATGTATCTTTTGCCTGATGAGATACCTATAAATCTGCTTCTCTTGAATTGGCTTCTTAAAAGTCTTAAGGTCTGATATTTTTGTCAGTACATAACTGCAGTTAATTCCAAATATGTAATTAGCAGTGCAGAAATTGAAATTTTGTGGAAAAGAAGCTTTTAAGGTATTTCCCTGCTTTCAGTGCAATTAGGCAGCTTTTCCTTTCATTGGAAATAACAAGAGATCACAAAATCATGTAATTGAGGCATTACAGCAGTTGTAGATTTCTATGCTCTTAATTGCTGGGGGGCATTTCCAGATGTCTTGATATATATGACTGCTAATAAAGAAATTGGGAAGAGTTTGACATCAATAAGTCTTAAATGTTTTTTAATTAATTGTTGCTAAGAATTAGTATTTTCCATGAGTTTTGGCCTGCTAAATGGAAATCCTGGAGGACTTTACTATTTAATGCTGAAATATAGACTGTGAGATGGAGATGAGCCTTTCATTTCCAAGATCTGCACTAGATGAGTAACATGATCTTGATCTCCCTGCATTACAAACCTTTCTTCCTTGTCCATTCAACCTGAAATCAAAATGTAAGACTTTTTTTTCTGCAT
Seq C2 exon
ACACAGGGCATGGTCTGTGGTCAGCCTTGTCCTGAAGGTCGTTATGGGAATAACTGTTCCCAGGAGTGTCAGTGCCACAATGGAGGGATCTGCGACTCAGCGACAGGTCAATGCCATTGCAGCCCAGGCTATACAGGAGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014699:ENSGALT00000023694:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126612=hEGF=PD(7.7=2.4)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(54.3=52.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGAGGATCTCTGCCCCC
R:
GTTCTCCTGTATAGCCTGGGC
Band lengths:
263-1985
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]