GgaINT0045903 @ galGal3
Intron Retention
Gene
ENSGALG00000007511 | F1NM67_CHICK
Description
NA
Coordinates
chr7:7149293-7149810:-
Coord C1 exon
chr7:7149722-7149810
Coord A exon
chr7:7149477-7149721
Coord C2 exon
chr7:7149293-7149476
Length
245 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
TTTGATGTTGCAACACACAGAGT
3' ss Score
2.55
Exon sequences
Seq C1 exon
CCTTTGCTGCAGAGTGTCCCAAGATCAAGGTGGGGACATGCAAGAACTGCATCCAGTCAGGCCCTGGCTGCGCCTGGTGCAAGAAGCTG
Seq A exon
GTAGGTCCTGGTAGCCTCACATGCTACCAGCAAAAGGGCAGTGGGACAGCCATCCTGCCAGTGGGTAGTCAGTCCTGGGAGGGCTTTGTGGCTTTCCTGTTGAGTGAGACCAGGAGAACTTCAGCCTTCCTTTCTCCACTGATCCCAGAGCACCAGTAGAGCTGTTTTGGGGGTTGGGCCATTGGGTTGTGTGTTTGCTTACCTCCTGCCCCCCTGATTTTTCCGTTTGATGTTGCAACACACAG
Seq C2 exon
AGTTTCACCAAAGCTGGTGAGCCAGACTCCAACCGCTGTGACACCATAGAACAGCTGCAGCAGAGGGGATGCCCAGAGAATGAGATTGAGTTTCCAGTAAATGAAATCAAAAGGACGCAGGACAGTGCGTTCAGCAATAAGATACAGCTGACTCCCCAGGAGGTGCATCTGAAGCTGAGGATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007511:ENSGALT00000012144:3
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=0.016
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PU(4.1=56.7)
A:
NA
C2:
PF0036213=Integrin_beta=FE(14.6=100)
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:
TTTGCTGCAGAGTGTCCCAAG
R:
TCCTCAGCTTCAGATGCACCT
Band lengths:
268-513
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]