GgaINT0125912 @ galGal3
Intron Retention
Gene
ENSGALG00000000847 | GARNL3
Description
NA
Coordinates
chr17:11163320-11165320:+
Coord C1 exon
chr17:11163320-11163418
Coord A exon
chr17:11163419-11165203
Coord C2 exon
chr17:11165204-11165320
Length
1785 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
CGGCTTTTTCTGTCCTTCAGGGA
3' ss Score
10.8
Exon sequences
Seq C1 exon
ATGGTCAAACCACTGTTCAAGTATTTGATAAAACTCTGCAAATAAAGCAGATGCATGTGTTGGAAGCTCTGGATTATTTGATTGCCCGAACAGACAAAG
Seq A exon
GTAGGAGAAGTCCCTATTAATTGGTTCTCCTATGAATATGTCTGGTTAACTGCTTATTTGGCAGGCACAACAGTAGAAAGGAATATTTCAACTCTTTTTCTTTAAGAGAATACTTTACTGGAAAAAAAATGCTCTACATTTAATTCCTGCAGTGCTAGATATTTATATTATCACTTTTTCTCACATCACCTAGCCATTTTTAAATTGCTCTTGTTAGGTTCTAGAGCTTTTATTGTTGCTCTTTGGACATCCTTCCACCTCTTTCCTTTGCTGAATTCCTCTGGGCTGCTCACATGTTATTTCCTTGTTGAGCATGTTTGAGTGCTTTAGGGTTTGCATGGCTCATGAGGCAATCACATCTTACTAGTGGCACATGTATTAAATGTCTCACTTAGAATTATAGATAGAGCAACTTCTGGTTTTTTTTAATTTTATTTTTGAGTTTTTTGTTTTCTAAAAGGGTTGGGGAAAAAAAGTCCCTAGATATGCTCAGAATCGTGCTTCAGTGCAAACCTTAAGCTGGTCACATTGAATCATAGAATGGTTTGGGTTGGAAGGGACCTTTTTATGGCCATCTAGTACACCTTTCCATCCCCTGTCATGGTCACAGCCATCTTTCAGTATATGAGGTTGCCCAGAGCCTTCTCCAACCTGATTCTGAATGCTTCCAGACATTGGGAAGCCATAGCTTCTCTAGGCAACCTGTTCCAGCACCTTACCCCCTCATAGTTAAGAAACTCACTCATAGAAGCACATGTTCTTGTGTGTATGTATTTTTAAAAAGAGAGGGACTTCAACCATTTTATTTTCTTTTTCTCATTGTTGACAGTAAGAATTTGCTCTGAGTTGATGTTTCAAGTTGTGGTGGACTTAAGCATTATGCCTTCTTTACTTTAATACTTTGTGGGTAACGAAAGTCATGCATGTGCCAGAGGTTGTCCTACTTCATGTTGCTCTTCAGAACTGACGGCAGCACCTGTGATCTTTTGTGTTTACAGCGAGATCTACACTGGCTGGCTATATGTTCAGAAAATGTGCTTAATTTTTCCAGTTATACCAGCTGGTCTATTGAAAGAGTATACCTGTGTCAGAAAATCTTGCTTTGTTTGCATTTTAAGAAATCTGGTTTCTTGTGTAAGGAGCTGTTCTTGAAGAGTAGCTTAATTCCAACTATAAATAGTAGTGCAGTATTATTTATTTATTTAAATTTAGGGATGCGTATTCTACTCACATCTGTCTTCATGGAAAATAGATTTAACTGTGGCAGTGGATGCTGTGTTATTTTTGTAATTGGAAAGTATCTTGAATGTGTGTAACTTTGAAGAATGGCAAAACCAGTCTGCCTCCAGGTTTTCAAACTCTTATCAGCTGCTAAGCTGGATGATTCCAGCATTTATAGTTAACCCTTCTACTCCTGCTTTTAGTTTGCCTCTGCTGTATCTTCACTTTTTCCAGTAGTATACCTCTCACTGTTTTGAAGATCTTACATTACCTGTGGGCGCTCTTTTTTTTTTTTTTTTTTTTTTTTGCAACATAGCCTGAAGGGAAACTTCTACTGACTGAAGGCATTATGCATTGGTTTCTAGGATTGTAAAGCCTAGACAGTGTTCACAAGCAGTCTTTACTTGTTTTCATGTTTCTGCTTATACCCAGAGAAGCAAAATTATTTATCTTTGCTTTTATGGCAATGCCCTGTTGGTTAGGAACTGCATTTCTTTGGAAGTATTAATTTCAGACCACCATCATCTTTTTCTAATTTGTTTTTCGGCTTTTTCTGTCCTTCAG
Seq C2 exon
GGAAAGACTCCCGTCTCCTTGTCTTCAGATTGAGTTCAGTCCAAAAAGATATAGAAACAAAGCAGGTGATAAGAAGCAAATATGACTGCAGAGAAAATAAATTGGAGAGAACAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000847:ENSGALT00000038633:19
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:
PF0078017=CNH=FE(10.9=100)
A:
NA
C2:
PF0078017=CNH=FE(12.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTCAAACCACTGTTCAAGT
R:
TCTCCAATTTATTTTCTCTGCAGTCA
Band lengths:
206-1991
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]