GgaINT0040494 @ galGal3
Intron Retention
Gene
ENSGALG00000005795 | F1NAB8_CHICK
Description
NA
Coordinates
chr6:18672633-18673948:-
Coord C1 exon
chr6:18673799-18673948
Coord A exon
chr6:18672794-18673798
Coord C2 exon
chr6:18672633-18672793
Length
1005 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGA
5' ss Score
8.6
3' ss Seq
TTTTGTTGTTGTTGCTGCAGAGG
3' ss Score
7.55
Exon sequences
Seq C1 exon
GCATTGTGACCAGCAATGGGGAGACCTGGAGGCAACTGCGACGATTTGCCCTCACCACCCTGCGTGATTTTGGAATGGGGAAGAAGGGCATTGAGGAGCGAATCCAGGAGGAAGCTCATTTTCTGGTGGAGAGGATCAGGAAGACACACG
Seq A exon
GTAGGACACTGACGTGTGTCTGCTAGGAAACCTTGCGTATCTGCAATGAGACTGTAAGAAAATTCAGTCTGGATTCACAAATAACAATCCCTGCTACCAATCTGAGAAAATGTGCTCATCTCTACTGCTCTTTTCATTTCACTGATTCTGAATTGTATATGCCTCACTGTAAGCTTCCAAGTCTCGGTCGCTTTGTTACGCTGTATACTACATTCTATGCTTTACTATGTACTAAAAGGCTTCACAAGTAACTGAAAAGTCAGAAGCGTTTTTATACTTAATGCTAACAATAAATAGATAGGACTACTAACCTACTAGACTTACTTATGCTGAGCATTACTATGCTTACCACTTCTGACAAGATATCCGATGAGGTTTTGCTGGCGAGGAGTCGCGAGCAAGGCAGAGAAGGGCAGGCTCCAGTGCTGCACAGAAGAGGCTGATCCTTAACGTTACCATTTTCTCTTCCATCTTTTTTCCTTTAGAATTTTATAACTTTCCATCTTGATGATTCTCATCTTCCATACTTGAGATATACCTTACCGCGCTCTCCAGGTTCAACTTTCGTGTCTTTCATGGATCTAATCTCATTTTTTCTCACGCTTCCATAGTTATTTACTTAGAAAATTCTATAGCCGTGCTGTCAAAACTCTATTTTTGATCACAGGTATCTGAAGTTTCATTGGGTTATGGTGGAATTCTTCAGGCAGTCTCTAATAAACAGTCTGTGCTGCTGCAAGACGTGTGTCAGTTGAAGAGGAAACAAGTCACTCAGAACAGTGTTACAGAAAGAACAGGACAAAACAGGCGCTTAAACAATCCTTTCAGGAAAATCACTTAATTACAAGTAGAGAAGAACCATTTGGATAAGCCTCTCACTATCTTCCTAAAGGACTAGAAAAATCTGGGTCTCAAGTGAATGCAAAACTTCCTAGGAGGTATCAGAGGAGGAGATGATGACTAAAGTACTGACAGCAGTTACCTTTTTTGTTGTTGTTGCTGCAG
Seq C2 exon
AGGAACCTTTCAACCCTGGGAAGTTCTTAATCCATGCTGTTGCCAACATCATCTGCTCCATTGTATTTGGGGATCGGTTTGACTACGAGGACAAGAAATTTCTGGATTTAATTGAGATGCTGGAAGAAAATAACAAATACCAGAACAGAATGCAAACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005795:ENSGALT00000040063:3
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=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(11.0=100)
A:
NA
C2:
PF0006717=p450=FE(11.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATTGTGACCAGCAATGGGGA
R:
CAGTGTTTGCATTCTGTTCTGGT
Band lengths:
310-1315
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]