GgaINT0045675 @ galGal3
Intron Retention
Gene
ENSGALG00000012511 | B6IDG6_CHICK
Description
NA
Coordinates
chr7:36977398-36977985:-
Coord C1 exon
chr7:36977863-36977985
Coord A exon
chr7:36977521-36977862
Coord C2 exon
chr7:36977398-36977520
Length
342 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCTT
5' ss Score
4.72
3' ss Seq
ATGCCTGTTTCTGTTCGTAGTCC
3' ss Score
8.17
Exon sequences
Seq C1 exon
CAGGGCTCAGCAGATTCGTACACAAGCAGACCCTCAGACTCTGATGTGTCTTTGGAAGAGGACAGGGAAGCGATCCGCCAGGAGAGAGAGCAGCAAGCGGCGATACAGCTCGAAAGGGCAAAG
Seq A exon
GTGCTTTCTTTTAAACTGTGATAGCGGCTGCTTATGGGGCAGTCACCGTCTGCCTGCTGTTAAGATTCGTACCGCTCATTTATAGTGGTGATGGCATGCTGACAGTCAAGTGAGATTTCCTGCAAGCCAAACTGGGGGGGGGGAATGTAGTGTAAATATTCTTGAATAAGTGGGGATCTTCTTTAGTGAACTGGACTCTCTTGGCTTGTGTGAAACTATTAGGTCTGAATTTTGATGTATTTGGCAAATACCCTCCACTAAATTTTTGGCAATTTGATACAGAAAATTAATTCCTGATGCAGGAAAGTTTCCGCTGTTTATGATGCCTGTTTCTGTTCGTAG
Seq C2 exon
TCCAAACCAGTAGCGTTTGCTGTTAAGACCAATGTGAGTTACTGTGGAGCTCTGGATGAAGATGTCCCTGTCCCAAGCACTGCCATCTCTTTTGATGCGAAGGACTTCCTACACATTAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012511:ENSGALT00000037762:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.872 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PU(92.9=97.5)
A:
NA
C2:
PF120523=VGCC_beta4Aa_N=PD(2.4=2.4),PF0001823=SH3_1=PU(44.2=46.3),PF0308010=DUF239=PU(26.3=75.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGGCTCAGCAGATTCGTAC
R:
CTCTTTAATGTGTAGGAAGTCCTTCG
Band lengths:
246-588
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]