GgaINT0145318 @ galGal3
Intron Retention
Gene
ENSGALG00000000406 | F1NRZ0_CHICK
Description
NA
Coordinates
chr28:527790-528578:+
Coord C1 exon
chr28:527790-527896
Coord A exon
chr28:527897-528421
Coord C2 exon
chr28:528422-528578
Length
525 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
TCTTCTCATTTGTCCCTCTCTCT
3' ss Score
-8.3
Exon sequences
Seq C1 exon
TTGGCCAAGGTTCTCCATTACATGAAATGGAAGCGGGTCTGCGAAGCGGTCTTTATTGTTTTCGCTGTGGTGTTCATCAGCTCCCGCCTTGTCATTTTCCCACTAAT
Seq A exon
GTGAGTTCATGTTTTAATGAACAGAACATTCCAGGTAAGCTCAAAGACGAATCCAGCTAGAACTGGGGGAACGAAGAAGAAAAGCTGAGGGTTGTTAGCTATAAATTAATCTAGAGTTGCAAAGTGCCCTTCGTCCCCAGGCTGTGGCTGTGTCCCATGCTGGGGTGGTTACACGCTGCCATAGACACCCAGCTCCAGCTCCAGCACAGGGAGAAGCACTGCCTGCTGCTCCTGGAGGGCATTGCAGGTTTCCAACCAGCAGCCTGTCTGTGAACACTATGGGATGGCTGGGAATTTCAAGGGTCACTGCGTGTCTTCTGGGGCCTGGGATGTGCTTGCTAGAGCTGGTAGAGTGTTTCTGGGGCAGAGCAAGAAGGCACCAAAGTGAAGCATGATTTCCCAGCACAGCTCAGCTCTGCCCAGGGGATCCAGGAGACAAATATCTGCCCAGAAAGTTTCCTGACCCTCCTAAGTGTGAACACACACAGCCTGCCGGAGTCCTGTCTCTTCTCATTTGTCCCTCTC
Seq C2 exon
TCTCTCCCACAGCACATACTATTACTACGTGACAAAATTTGAGATGTTCTTCCTAAGCTGCCTGATAAACGCTTTCCTGATGATCCTGCAGCTGTTGCACATTTTCTGGTCCTATCTCATCCTCCGGATGACCTTCAATGTCATCCTGTATGGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000406:ENSGALT00000000553:8
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:
PF0379811=TRAM_LAG1_CLN8=FE(18.0=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=PD(21.6=79.2)
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:
TGGCCAAGGTTCTCCATTACA
R:
CGCACCATACAGGATGACATTGA
Band lengths:
263-788
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]