GgaINT0126346 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NFI9]
Coordinates
chr17:276902-277925:+
Coord C1 exon
chr17:276902-277004
Coord A exon
chr17:277005-277811
Coord C2 exon
chr17:277812-277925
Length
807 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GATTGTCTTCATTTACTCAGAGG
3' ss Score
4.77
Exon sequences
Seq C1 exon
AGAGAGTGGAGCACCGTGCTGGCGATGGGGAGGGCAGCTCCCATCCTCCTCGCCCTGCTCAGTGCATCAGCCACCACCTGTAGCACCCAGGACACCTGTCCAG
Seq A exon
GTGAGTGACACACCAATGCTGCTGCCGGTGCCTGAGGCAGGCTGTTCTGTCAGCCCACCTGGCACAAGGGCCATTACAAGGCCCTGGGGGAGAGGGGGGGATTTTTTCCTTTTATGCTCCTTTTTAATTCACCTGCAAATGGAAGGCTGGGGGTGGGTGATGAAGCCTCAGCTGCGGCCTTACAAAGCTGCTGGCTCCAGTCAGATGTCCCCTCAGCTGTGAGGTCTCCAGGAGCAGACTTCCCCATTCTAGGCTTTCCGTCCCAGCGCAAAGTGTCCATCCATGGATGTGCCCCAAGTACTGCCGGGTGCGGAGCTATATGAAGGGACAATCCAGTGCGTGCTGTGTGCCTGGCACCTGGCAGCTCAGGGACACCACACAATGCAGCTTTCTGTCTGTGTTCCCTGGGAAGGCAACAGGTGTGATTTGAAACTGATCTGGTGTCAGAAAATGGGACAGAACATTTACAGTCCAGACCCGTCAGTGCCATTTACTCTTTGCCATCAATACACCACAGGACACCTCACATCTTTTGCTTTATCAAGCTATAGTACCTTTGTCATGCATGTAATGTCCCATATAACAGCCTTCTCTCCCAGTAAGCTCCCCTGAAGTTAGAGAAATTCCACACCTCTCTCTTCTAACGTTAACTCGTACAATCATGCTGAGCTCCCATCCTCAGGAAGGACATGACTTCTGCCTGTCTTTGCCTTTTGTACTGTTTATGAAGCCCAAAGGGTTCGATTTCTTATCCCAAACATCACAGAATCATAATAATCTCTGCAATGATTGTCTTCATTTACTCAG
Seq C2 exon
AGGTGAAAATAGTGGGACTTGGTGAGGCAGACCGTCTTGCTGTTCTTCAAGGATGCCCAGGGATCCCAGGTGCAGCTGGCCCAAAGGGAGAACCAGGCCTCTCAGGAAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009151:ENSGALT00000014902:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.462
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139113=Collagen=PU(36.1=56.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGAGTGGAGCACCGTGC
R:
TTTTTCCTGAGAGGCCTGGTT
Band lengths:
214-1021
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]