GgaINT0126144 @ galGal3
Intron Retention
Gene
ENSGALG00000008625 | F1NLT0_CHICK
Description
NA
Coordinates
chr17:2187627-2189198:+
Coord C1 exon
chr17:2187627-2188249
Coord A exon
chr17:2188250-2189065
Coord C2 exon
chr17:2189066-2189198
Length
816 bp
Sequences
Splice sites
5' ss Seq
TCTGTACGT
5' ss Score
4.47
3' ss Seq
CCCGGTCTCTGTGTCCGCAGCCG
3' ss Score
10.4
Exon sequences
Seq C1 exon
GCAGCGGCGCGGTGTGACCCGGTGCGCCCACTGCAGGACGCTGAGCTGCGGGCCGCCCTGGAGGTGCTGCGCTGTTATGGGCTGCACGCTGCGGTGGAGGAGTGGTTCCTGGAGGTGCTGCAGACCGACCTGCAGGCCCACATCGCTCCCGAGTTCTGGAACTGCGTCGGCCAATATGAGAACACGGCGGAGGAGCAGCAGTGCTCCGCGCTGCTTCTGGATGCGTTTTGTCTTCTCAAGTGCCGCCTGGAGCCCTACCTGAGCAGCATGGAGCTCCTGGAGGGCTGGACTGAGGCAGGCCTGCTCCTGGGGACGGGCGCTCAGACGCTGAGGGAGAAGGTGTACACCATGTTCAAAGCCATCCTTTTCTTCTCCACCACCAAGCCCTTCCAGGAGATGATCCAGCAGTTCTACAGCCGCACCTTCCGGATATACATGCGGCAGTGGAAGAAGGGGGAAGAGGGAATGAATGAATGTGAGAGCAGCATGAGCGAGGCTGAGCAGGAGAGTGACACCGAGGAGGGTGGAGGAGAGAGCGCGGTGTGCGCGGGCTGCGGCAGCAGGAGGGAGCAGTGCTGGTGCCCCACGGCCATGGAGCGGTTCCGGCAGCTCAACCACATTCT
Seq A exon
GTACGTACGGCACGGGGCTGCCCCACAAGCAGGAGGTCCTGCGAGGGCAGCAGCCCCGGGTTTATTCGTGGCTGAGAAATGGAGGAGCTGTGAATGAGGTTATGCCCTGCGTAGGGGTCCCGGGTTGGGGTCTTCTTACGTGGGTTCTGCAGCTGCTTGCTGGCTGCTGGCTGAACTGGAGAGGTGCTTTGGACAGGGGTGCCTCTCACTGGGGGTGGGAATATCTTCCAAAGGCCTTCTGTCCCAAAGGAGCAAACTCCTCTGGATGAAAAAGCTTTGGATAGCTAGAAAATGGTTCTGAATAAGATGGGATAGCAGTAATGTCTTCTATTATAGAAGGGGACAGACTTCAGCAGGCTTTGCTGTGGTAGCACAAGGGGAAATGGTTTCCAACTACAAGAGGGGAGATTTAGGCTGGATATAAGAGGAAGTTTCTTACACTCAGGGCAGTGAGGCACTGCATGGGTTGCACAGAGAGGTGGTGGTGCCCCATCCCTGCAGGCACCCAAGGTCAGGGGATGGGGCTGTGGGTGTCCCTGTGCACTGCAGGGAGTGGGAGCGGATGGCCTTTAATGATCCCTTCCACCTCAAACCATTCTGTGATTCTATAATCCTATGACAGTGTTTCTGAAGAGGATAGGATGGCAGTCGTGTGATGTATTATGTATGTCGTGCATCGCTGCCAGCCATCAGAGTGCTTAAATTAAGAGCTGTGGCTGCACCTGTGCACCACGTGGCAGCAGGTGGCCCCTGTTAGTTCAGTTTTCTCTATGTGCTTTTGCTTCTGCTCCCTCACCCCGGTCTCTGTGTCCGCAG
Seq C2 exon
CCGCCGGCTGAATTTGCTGGAGAGGGTGAGTGCTGATGCTGTGACCACCATCCTGCACAGGATGATCAAGGAGAGGATGGAGCGACGATGCCGGGGTGAATATGAGCACTCCTTCCTGAATGAGTTCCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008625:ENSGALT00000014053:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.115 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CCAAGCCCTTCCAGGAGATGA
R:
CTCATATTCACCCCGGCATCG
Band lengths:
350-1166
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]