GgaINT0040492 @ galGal3
Intron Retention
Gene
ENSGALG00000005795 | F1NAB8_CHICK
Description
NA
Coordinates
chr6:18674736-18675791:-
Coord C1 exon
chr6:18675577-18675791
Coord A exon
chr6:18674899-18675576
Coord C2 exon
chr6:18674736-18674898
Length
678 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
TGTGTTCTTCCTTCCTGCAGCTC
3' ss Score
12.48
Exon sequences
Seq C1 exon
GACTCTTCTGACACTTGACATCTCTTCCTCTGCCCACCATGGACTTCCTGGGATTGCCCACAATCCTCTTGCTGGTCTGTATCTCATGCCTTCTCATTGCTGCATGGAGGAGTACATCGCAAAGAGGGAAGGAGCCTCCTGGTCCCACGCCAATCCCCATCATTGGAAATGTTTTTCAGCTGAACCCGTGGGACTTGATGGGAAGCTTTAAGGAG
Seq A exon
GTAAGGCTGCCTCTTTCATTTCTGTGTTGTCTCCCTGGCCTGTAGAACAAAGCCCAGTCCAGACAGTCTCAGCTTAATTCACAGCTTCTGTGTAAATGTTTGCTTTTGATGTATTACGCTGCCTACTGGAATTACCATACCTATGTTGAGACCTGCACTGGCCTCACGACAGTACTGCAGTATACAACAGATTTCTAGACAAGGTATTGATGCTTTTGCCATATTCACCACATCCCTTCTGTACCCATCCCCTCAGTGCTCTGGCAACAACGCCGAGCACTGTTTTAGGGAGGACCTTGCTATGCTTTGTTGTCTCTGCTCCCTGCCAGGTAGGTATAATCTCCAGGGAGGGGTTGTCACGAGTATAAGGGATGAATCAAAGGAGTTGAAGATGAATGGTGCTGTCTGTTCCCTCCCCCGGATACTGTCATGCATCTGTTCAACAGAACCTGTATTGCAGTGCCTGGGAGAGAATAGGTGGAGTAAGTTTGGCTTTGGAGCCGGTTCCTGAGGGGACTGTGATGGAATGGTGGTAGATGGATGGGAAAGAGCTAAGAAATGAAATGGTTCCCAGAAAATTTGCGTAGGGGTCTTATTCACCAGGCGAAGACCTGCAAACTTAATTTTTCCATGATTAACATCCAGATGTGTTGTTCCTTGTGTTCTTCCTTCCTGCAG
Seq C2 exon
CTCAGCAAAAAGTACGGTCCTATCTTCACAATACATTTAGGCCCCAAAAAGATTGTGGTGCTGTATGGCTACGACATTGTGAAAGAAGCCCTAATTGATAACGGAGAAGCCTTCAGTGGGAGAGGAATACTGCCTCTGATTGAAAAGCTCTTCAAGGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005795:ENSGALT00000040063:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(5.7=47.3)
A:
NA
C2:
PF0006717=p450=FE(11.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTCTTCCTCTGCCCACCAT
R:
TGTGCCCTTGAAGAGCTTTTCA
Band lengths:
358-1036
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]