GgaINT0045906 @ galGal3
Intron Retention
Gene
ENSGALG00000007511 | F1NM67_CHICK
Description
NA
Coordinates
chr7:7147747-7148502:-
Coord C1 exon
chr7:7148261-7148502
Coord A exon
chr7:7147903-7148260
Coord C2 exon
chr7:7147747-7147902
Length
358 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
3' ss Seq
TGCTGTCCATACCATTACAGGAC
3' ss Score
8.33
Exon sequences
Seq C1 exon
GTTTTGGTTCCTTTGTGGACAAGACTGTACTGCCTTTTGTCAACACACATCCTGAGAAGCTGAAGAACCCTTGCCCCAACAAGGACAGTAATTGCCAGCCTCCCTTCGCCTTCAAGCACATCCTCTCACTGACTGACAATGCCGAGAAGTTTGAGAGTGAAGTGGGGAAGCAGTTCATCTCAGGGAACCTGGATGCCCCAGAAGGGGGGCTGGATGCCATGATGCAGGCGGCAGTGTGTGGA
Seq A exon
GTGAGTACCCAACAGGGTGGTCTCATGTCTTCCTCATTCCCTGCACTTGCGGGCATGATGGCTGCTGCCTCTGCTCATGGCTCCTCCATCAGGAGCTGGCTCTGTTTCTCCCAGAGCAGCTTGAGGGTGCCCATCACGTAGCCTAGGCCTGTAATCCATGTAAAAGTCCTGATTTGGCTGGACACAAAAGAGCATCTTACCTGTGGGCTTCCTGACTTTAGTCCCCAGTAACACTCCTCCATGCCCTCTGGCCCTTGCTGTGGCTGATGTGGTATCCCTCAGTGACTCCACCATGCCCAGGCAACATCACTCCAGCCCCATTTGGGGACAAGTCTCAGTGCTGTCCATACCATTACAG
Seq C2 exon
GACTTGATTGGCTGGCGCAATGTGACCCGATTGCTGGTGTATGCAACTGATGATGGCTTCCACTTCGCTGGTGATGGCAAGCTCGGGGGCATTTTGACCCCCAATGATGGCCAGTGCCACTTGGAGGACAACATGTACAAAAAGAGCAATGAGTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007511:ENSGALT00000012144:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(19.2=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(12.2=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:
TTGTGGACAAGACTGTACTGCC
R:
GGCCATCATTGGGGGTCAAAA
Band lengths:
342-700
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]