GgaINT0027376 @ galGal3
Intron Retention
Description
NA
Coordinates
chr10:20413957-20415558:-
Coord C1 exon
chr10:20415302-20415558
Coord A exon
chr10:20414078-20415301
Coord C2 exon
chr10:20413957-20414077
Length
1224 bp
Sequences
Splice sites
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
3' ss Seq
TTTCTTCTCTCTCCACAAAGCTG
3' ss Score
8.24
Exon sequences
Seq C1 exon
TGTTTTACAGGTTGCGATAGCGATCACTGGGGACCGCACTGCAGCAACCGGTGCCAGTGCCAGAACGAAGCCCTCTGCAACCCCATCACGGGCGCCTGTGTCTGCGCAGACGGGTACCAAGGCTGGCGCTGCGAGGAGCTCTGTGAGCCCGGGAGCTACGGCAAGGGCTGCCAGTTCCAGTGCCAGTGTCACAACGGGGCGACCTGCGACCACGAGACGGGAGAATGTCACTGCGCTCCTGGATACACGGGGGTGTT
Seq A exon
GTAAGTTCAGTGATGGGTGTACTTCACCCTGCATTGTTTTAACAGCTTTGCTTTGGCTGCTATTAATGCGATGAGTAATTATCAGAATTTGCACTATCTGTATATTATGCACTTTCCTTTGCAGAAATCAGGTAACAGAATTTCAGAGAGGCTGAATAAAGGAAATCTCTGTTATTTGCTGCTAATGATACCTGTCTGCATACCAAAATAGATCTTACTGCTAAAATGAACTCAAAACTCCATGACATTTCCCAACAACTGTGGCTACAACAGCTGTAGCTGTTCCTAATTTCAGTGTGTGAGTACAATCCAAATTGCAGTTCAGTTTTTTTAAGCGGTTGGGCATCCTGCTCGTTAGCAATCCAGTGCAGCATCAAATGGGACTTACCATCCCCAGTTTATTTGGCTTTCTATCTAGCAGAGGAAGCATTACTGGTAACTATATGAGCTTACTATCTAGGGGGTAAATTTTCAGCGTAGTGAGGAGGGATTTAGCGGTGTGATTCCTATTAACTTTAACGAGAATCGTGTAGCTAAATCCCCAAATACCACACAAAGTTTACCAGTAGGATTCACAAAATCTGCATATTAATTTTAGGACAGCAAGAAATAGTTCCTTGTTTAAAATTGCCCACGGTGTAACATCAGTACTCATTAGAGATCTTTCAGTAGTTTCAGAAGTAATTATGCTTTTCAGAATTATTTAAAGGGAAAAGATAATTTACTCACTGAATTTGGCTGGAGATCTATTACAGGTGACTTAATATTTCTGCAGTCTAATAATAGTTGTTGGCCCGCGTGAAGAAGGTAAAAAATAAAGGCAATATTAACCCTCATAAATAAGTGATATACTTTTTGAATATTTTATTTAGTACCTGATTTCCTCATAGCCTTCTGACCTCAGTCCTGAAAGCACTCACTGCTAAATGTTCCGCATGCTATTAGGACTGGTCCCATTGACATTAGCATGTCTGTGCTCAGCAGGAAGTACTTGTATGAACATCCTCATCAGAGAACAGCCACATACTGGGAAAACGTAGAGTACTGTCGGGGATATGAGAGTTGTCTTATTGAAATAGGTGGAATTTGGTGTATGCATAACGATTGCACACATGCATCAGCCTTACAGCATCAGACCTGCGTTGTGGATTTTCCTCTTTTACCGTTTCCTGCAAGTTCTTTTAAATGACCCCGTTGGTTTTTGTTTCTTCTCTCTCCACAAAG
Seq C2 exon
CTGTGAAGAGCGCTGTCCCTCCGGGAGCCACGGAGCTCAGTGTGAGCTGCGCTGCCCGTGCCAGAATGGAGGGGTCTGCCACCACATCACTGGGGAGTGCTCCTGCCCTGCTGGATGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007631:ENSGALT00000012349:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=59.3),PF126612=hEGF=PU(84.6=12.8)
A:
NA
C2:
PF126612=hEGF=PD(7.7=2.4),PF126612=hEGF=PU(61.5=19.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATAGCGATCACTGGGGACCG
R:
ATCCAGCAGGGCAGGAGC
Band lengths:
358-1582
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]