GgaINT0021556 @ galGal3
Intron Retention
Description
NA
Coordinates
chr12:8945191-8946362:-
Coord C1 exon
chr12:8946179-8946362
Coord A exon
chr12:8945267-8946178
Coord C2 exon
chr12:8945191-8945266
Length
912 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TTTGTTTTTTTTTTTCCTAGTGC
3' ss Score
9.14
Exon sequences
Seq C1 exon
TATCTCTTTATGAAGAAGTGTGTCCAAAGTAATCCGGTGGTTCCCATTCAGCAGCAGTGGCTGATGTCCATGCTCACCCTGGTGCCACAGCCACTCATGGAAGGCAAAGACAGAGAGCTGTTAATTGAAAAGCTTTTAGAGGAGATAATAAAGGATTTTGAGAAGAGTATGAAAAGATGTGTGG
Seq A exon
GTGAGTAACGCAAACTACACAGTGCTATCATTTGTGTGTGTGTGTGTGTGTAAGATTTAACAACTTATATGTGCCTGCATATACAATACAAATAAGCTATAATATGGTATATATTGCATTGCATTACATAATATATGTAACAACATTTATAAATAATGTAATATGTAGCATAATATGGAATAATATATTTTTTAGTGTCTGCAATAGCAGCTTTTATTAAGCTGTTCATCTACAAGTGCATCCATAGTTTTATTGATGCTTTCTCTATTGAATGAGGTCCCAGGAAAAATCTGCAGAGATAATTAACTATTTTCAGATATCAATTGTAACACTCACTTGAAATTTTAAACTTTCAGAAAAGATTAATAAGTTCCAATTTTGCAAGTGTACTTCTTTGAAATTCTGTGCTATCCTTATTTATTTACATTTATTGTATCTGAAAACTAACATTTAGTTGATCTTGTGAAAGCTGGTCTTGTTACAAACACATGTTAAAGAAAATAAACAATTTACACTGTGACTAACCGTAATATCATTAGTAGTATAGTTGTAGTGCACCACTGTATTTGTCTTGAACAAAATTGCCACTAATTCTCAATCATGTAAATACTACCTTTGTGACTTTATGAGGGGCAAAGTGATTGGAATTAAGACCTGATTCTCTGTGGTTATTTAGCAAAAGCTGTGATTTTGAGTTACTTTTGGGGAAATGTGTTTTTTGGGAGGTGGTTTATTTTTTTTGTGTGTGTGTGTTTTTTTTACCTGTTATTTGTTTATTGTGTTTGAAGGCTTGGATGATACAGTTGCCTTTCCATCTCTCTGTGTGTGTGATCCATCTTGGAGAACAACGTAGGCAGTAGAGTGCCTATTGAACGTGCTCATACGGTTTTGGTTTGTTTTTTTTTTTCCTAG
Seq C2 exon
TGCGAAGTGTTCTTATTAAGCCCAATGTGAAAGGACTTGAGGATGAAGAGGAGGCACCTTTGCCTTTATCACCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005601:ENSGALT00000008986:1
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCTTTATGAAGAAGTGTGTCCA
R:
AATGGTGATAAAGGCAAAGGTG
Band lengths:
258-1170
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]