GgaINT0073747 @ galGal3
Intron Retention
Description
NA
Coordinates
chr4:34379695-34380967:-
Coord C1 exon
chr4:34380909-34380967
Coord A exon
chr4:34379889-34380908
Coord C2 exon
chr4:34379695-34379888
Length
1020 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
TTCCTATGTTGTTTGTGCAGAGG
3' ss Score
7.52
Exon sequences
Seq C1 exon
ATTGATGTTCCAGAAGACGGCAAAAGGAAAAAAATACCCTGCTCCTCACAATCCATTAA
Seq A exon
GTGAGTCAGATAAGTATTGTTTTCTTTCTCATCTTGATTTAGTAGGAAGTAAACGGAAAGGTAGTGCGGAAGTAGGCGTTAATCTGTGCTGAGGTTAATATGGTTAATAGTTTCTTCACCAAAATTGTTTAAAAAACTAAACATTTATGGCATTACACTAAGAATGTTTTTCATCAGAAAAAGAAGACTTAACCTTTGTATGTTTAACTAAGTAATGCTTTATTGGCTTTCATAACTCTGAACTGCAGGAAGTAAAGCTAATTGAGGCAGAGATAGGAACTAGCATCAACAGGAGTGTCAACCTTGTTGTGATAGATGTTGGCTTGTCCTAACTGAAACTTGGGTTTTTTTAAAGCCTGCTTCTGCAGCTAACAAATGAGCAGAAAATGCTACTGCTGAACCTTTTAAGAAGATATGAGTGGGGATGGGAATCAAGCTTATAGATTGCTTTAAACTATGCCATGGAACTGTAGTGTATTTTCAGGTTTTTTTCCAACATGGCATTTCTAATAAATCATACTTTTTTTTTTGTATGAAAAATGTATAAAATTGTTAAGTGAGGAAAAAGATATAATTCATTTTTCAGTATTGTACCGAACTCTGTAACATGTATCAGATTCACTGATGCTTTTATCTTCAATGATTTATTTCCCCACCCTGGGATGCTCTTAACAAAAGCATATTAGTACACTTGGAAATGGGCAAAATTATAGAATGGGACACGTAGAACTAATGTTTTTTGTTTTAAAGAATATGATCTTACGCAAAAATACTGTAGCAGCCAGGAATTCAGATACAGATGTTACCTCCATCTCCTTTAGACTCCATACTCACCCTCCTCAGAAAGCAGAGATGATAACTAGGTCAAGACTCCAATTTTCCATCTGTTCAATCTTAAGTGCATTCTTTTATCATTTTAGTAAAAGATATCACTGCATACTTTGCATAACGGCTACCTGAATATTATGGAGACAGTAGTATTAAATATAAATAAAGTAAGTTCCTATGTTGTTTGTGCAG
Seq C2 exon
AGGCCCAAGATGTGTAGCACGATTTGAATACATCGGAGATCAGAGAGACGAACTCAGTTTTTCAGAAGGTGAAACAATTATCCTTAAAGAATATGTAAATGAAGAGTGGGCCAAAGGAGAACTCAGAGGCACGTCTGGAATTTTCCCCTTGAACTTTGTGGAAGTAATTGAAGATCTGCCTGGAAAAGGTATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010081:ENSGALT00000016385:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.150 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146041=SH3_9=WD(100=74.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGTTCCAGAAGACGGCAA
R:
CCTTTTCCAGGCAGATCTTCA
Band lengths:
246-1266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]