GgaINT0144382 @ galGal3
Intron Retention
Gene
ENSGALG00000000458 | F1NP62_CHICK
Description
NA
Coordinates
chr28:603697-604234:+
Coord C1 exon
chr28:603697-603971
Coord A exon
chr28:603972-604097
Coord C2 exon
chr28:604098-604234
Length
126 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGC
5' ss Score
4.33
3' ss Seq
GCTGCATCTTTCCCATTTAGTGG
3' ss Score
6.13
Exon sequences
Seq C1 exon
GTTCCAGGACCCGGCCATGTGGGCAGCGTACGCAGGGACCACCTCCATCAGTGGTGCAGACAGCAGTGCAGTGAAAATGGGCATCGCCCGGATCATCCCTCACCCCTCCTACAACACTGACACGGCCGACTACGACGTGGCCGTGCTGGAGCTGAAGAGACCCGTGACCTTCACTAAGTACATCCAGCCCGTGTGCCTGCCACATGCTGGGCATCACTTCCCTACCAACAAGAAGTGCCTGATCTCTGGCTGGGGATACCTCAAGGAGGATTTCT
Seq A exon
GTAAGCAAAGCGTGGCAGGTGGCAAGGGAGGCACCGGGGGGGGGCACGCAGATGGGGTGGGCTGTCACAAAGGGTCCCACTCCGGGCTCCCTGCATGGAGCTCATGGCTGCATCTTTCCCATTTAG
Seq C2 exon
TGGTGAAACCTGAGTTCCTGCAGAAGGCAACGGTAAAGCTGCTGGACCAGGCGCTGTGCTCCAGCCTCTACAGCCATGCCCTCACAGACAGGATGCTGTGTGCTGGTTACCTGGAGGGGAAAATTGACTCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(40.2=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.7=100)
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:
AAGAGACCCGTGACCTTCACT
R:
TGGCAGGAGTCAATTTTCCCC
Band lengths:
257-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]