GgaINT0125530 @ galGal3
Intron Retention
Gene
ENSGALG00000002855 | F1NBJ7_CHICK
Description
NA
Coordinates
chr17:7715139-7715910:-
Coord C1 exon
chr17:7715806-7715910
Coord A exon
chr17:7715269-7715805
Coord C2 exon
chr17:7715139-7715268
Length
537 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TTCCTGTTTCCCAACTTCAGGTA
3' ss Score
10.39
Exon sequences
Seq C1 exon
AACATGCCGAACGTTCGGGATCACGATGCCTCGGTGTATCTCCGTCTCCAAGGCGATGCCCTTTCCGTGGGTGGCTATGAGTCAAACCCCATCTTCTGGGAGGAG
Seq A exon
GTGAGCGGTGCTGGGAGGCTCTGGGGGGAGCGAGGCGAGTTTGCAGGGGACCCACATCAGTGGGGTGGGTGCAGCAGTGAGCTCCTTATGGCCCCGCACTGCCCAGCCTGGGGGTACCGACTGTGGGCTGATTTTGGGAGCTCAGGAGAGCACCATCCCCTTTGGTCTGCAGGTGATGAGGAAACCAAGCAGGGTTCGGGGCTAACCCTACTGTGCTGCTGGGTCCCTGTATCTTAATTCAGGCTCTGCCCCAGCCCTTACGCTGTATTTTTCAATGCCTCTGTCCCATGGAGAGGGACCCCCCTCACCAGATGATGCCCGTTCCCTGCCATGTCCACGATGTACACCAGGACACGCAGGGGCTTTGGGTTTGGTGCTGGCTTTGCACCTCTGTACTGAGCTGTTCATAAAAACCCAGAGACTGGGATCTGCAAAGCGGCTCTATTTTCTGTGACCACAGAGGTTGGTAGGGCTGGGAGGTTCTCACCCATCAGCTGCGCTCTAGTTTGTGTCCTGATTCCTGTTTCCCAACTTCAG
Seq C2 exon
GTATCAGAGAAATTTGCCTTCAGCCTCTTTGACCTGGACTGGGATGTTTTTATGCAGCACATCCAAGGTGCCATCAACCGAGTGCCGGTGCTGGAGAGGACGGGCATCAAATCCACTGTCTGTGGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002855:ENSGALT00000004499:6
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=0.000
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(9.4=100)
A:
NA
C2:
PF0126619=DAO=FE(11.9=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:
GAACGTTCGGGATCACGATGC
R:
ACAGTGGATTTGATGCCCGTC
Band lengths:
216-753
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]