GgaINT0027387 @ galGal3
Intron Retention
Description
NA
Coordinates
chr10:20352160-20353134:-
Coord C1 exon
chr10:20353006-20353134
Coord A exon
chr10:20352289-20353005
Coord C2 exon
chr10:20352160-20352288
Length
717 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGC
5' ss Score
6.06
3' ss Seq
CTTACTCTCCTTCCTGAAAGGTT
3' ss Score
9.04
Exon sequences
Seq C1 exon
CTTGCCCCCCAGGTTTTTGGGGCACGGATTGCTTTCATTCATGCAACTGCCACAATGGAGCAATGTGCAGCCCTTACGATGGAGAATGCAGATGTACTCATGGTTGGACTGGGCTCTACTGCACACAGC
Seq A exon
GTAAGCCTTTCGGATGTGCTATTTTGTCAAGGAATCTGTCAAAGTATGTGCTGCTACCTCGTGTCTCTTCCAAGTATTGCACTCTTGCTGCTATACCACCTGTTTCAGGCTAGTGGATAACCTCGTGTCACTACAAGGAAAATGTCCTGAAGCTTCTCGAGGTTTTTTATGCCCTTGGCATGATAAAAAATGAGGGTCCGACCATTTGGGTTATTGATTTGTTGTCAGAATCGGTACAGTCCTTTCCCTTGGTTTGTAAAGCCCTGCAATACACTGTCTGCTTTAGGAACATGTTTGAGATTTCTGATCTCAACAGCACAAAATTATCAGCTCTGCACAAAAGAGGGAATCACATTCTGGGGAGCCTTCTGGGAGGGCTCTTCCACTTGCAAGAAACCAACTGATCTCCGGCCTCTTAGAGAGTTTCTGTCCAGCTGTCTTCTTTCACTCCTTGAAAATGTACTTTGTATGGATGCGTGAAGTTTTTATTCTTCTTAAGTGCTTAAAAAGCAGTTCTGTAAGATAGGAGAAACGCTGCTGCAAGAAAATTGGCTGCCATGGTAGCTCTGCATTTTTTAGATCATCAAATACATGTTATTAGATATACAGAGGCTGAAAATCCATAGATTTATAGGCTCATTTATTTCATGCTGTTAACACATTCGAGTTTGCGTTTCAGTTCATTTCTTCATCTTTCCTTACTCTCCTTCCTGAAAG
Seq C2 exon
GTTGCCCAGCTGCTTTCTATGGAAAAAACTGTGCCAACGTCTGTCAGTGTCAGAACGGAGCGGACTGTGACCACATCACTGGGCAGTGCACGTGCAGGACGGGATTCACAGGCAAACAGTGCGAGCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007631:ENSGALT00000012349:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(30.2=29.5)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(69.0=65.9)
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:
CAGGTTTTTGGGGCACGGATT
R:
TGTTTGCCTGTGAATCCCGTC
Band lengths:
238-955
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]