GgaINT0046943 @ galGal3
Intron Retention
Gene
ENSGALG00000011009 | F1NN72_CHICK
Description
NA
Coordinates
chr7:21341364-21342794:-
Coord C1 exon
chr7:21342703-21342794
Coord A exon
chr7:21341637-21342702
Coord C2 exon
chr7:21341364-21341636
Length
1066 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
AAAATCCTTCCTCTTTGCAGGCT
3' ss Score
8.98
Exon sequences
Seq C1 exon
GTATGTAACAGAATTTGTAAACCTAGGCAATGTTTCAGCTCTTCGAACTTTCAGAGTATTGAGAGCTTTGAAAACTATTTCTGTAATCCCAG
Seq A exon
GTAAGATGTAGTTGGTGTAAGGTGTTAGGCCCCTCGTTTCTCCAACTGTTATTTGTGTGCTGTCATTGTGTTTGTGTGTGAACTCCCCTATTACAGATATGTGACAGAGTTTGTGGACCTGGGCAATGTCTCAGCGTTGAGAACATTCAGAGTTCTCCGAGCTTTGAAAACAATATCAGTCATTCCAGGTGAGAGCTAGGTTAAACACTGAGGCTGACTGTTGTTCCACAGAGGCTATACTCACATTTTTGAAGCATAAGCACATTTTTTAATACAATAAAAAAGCAGGAATCAAGGCATAACTTCATTTAAATTGATTTTTGCTTTTTTAATTAGCTGTGTTTTCTTTTTAAAAGTCAGCCTTTGAGTTTAACAAACACTTGCATGAGATATTTGCAGTAAACAGCCTATGTGATTTGCATCTTATGACATCAAGCTTTCCTTTATATGTTTTAACTGTAAGTTAATTTTAAGCTTTCATATTGATGCAAACTTTATCATTTATTTCAGGCACTTGATATACAATTTTAACTCAGTTTCAAATGTCATGTGTAAAAAATTAAATTCTAAAGGATAGCATGGGCCTTGCATGGGGACTTATTTTAAAGATGTCTTTCTTCTCCAAACCATCAGCCCTGTCACATCATCAGAAGTTATCTTTAAAATATGAATTTATTACATATTTATAACAGGTTTATAAATGCGGAATAATTTCAAATGGTTCGTGTAAGAAAGGTTTGGGCAAGAAGCATCAGCAAAAGCAAACAGTACTTTCCTATGTAGGGTGGAACTATATAGCATGAATAATAAAATCACTTGATTTGGCATAAAGAATATGTTTGGTAACATCTACTTTTATTTCTGTACACTCTAAAATAAGCATAAACTTACAGCTTTTCATTCATCTTCACAAGTAATCAATCTTTTAACAGACACTATTGTATTACAAACATTAGACTCATTTAGTAATTATTTTGCATGAAATCTTTATTGGAAAAAAATCACATGATTTTTTATGTATTTAGTATCTGCTTAGTATCATAATAAAAATCCTTCCTCTTTGCAG
Seq C2 exon
GCTTGAAGACTATCGTGGGAGCCCTAATTCAGTCTGTGAAGAAGCTCTCAGATGTTATGATCCTGACTGTGTTTTGTCTGAGTGTATTTGCACTAATAGGGCTGCAGCTGTTCATGGGCAACTTGAGGAATAAATGCCTGCAGTGGCCTCCAGACAATTCTACTTTTGAAACAACTGTTATTACCTACTTTAATAGCTCTATAGGTGAAAATGGTACATTTATTAATACAACAATGACAATATTTAACTGGGATGAGTACATAGAAGATGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011009:ENSGALT00000017933:6
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:
PF0052026=Ion_trans=FE(11.4=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(40.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTAGGCAATGTTTCAGCTCT
R:
TCATCTTCTATGTACTCATCCCAGT
Band lengths:
343-1409
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]