GgaINT0108168 @ galGal3
Intron Retention
Gene
ENSGALG00000023986 | F1P0H2_CHICK
Description
NA
Coordinates
chr1:104925-105639:-
Coord C1 exon
chr1:105482-105639
Coord A exon
chr1:105073-105481
Coord C2 exon
chr1:104925-105072
Length
409 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
GCTTCTCTTCTCTACCGCAGGGT
3' ss Score
9.97
Exon sequences
Seq C1 exon
CTCTACAGGAATATGTCGAACCATACCGTGTCCTGCAGGAGGCCAAGGTCCAGCTCATTGACCTCAACATCTGCAACAGCAGCAACTGGTATGCTGGGGCTGTCCATATCCACAACGTGTGTGCTGGTTACCCGCAGGGCGGCATCGACACCTGCCAG
Seq A exon
GTAGGAGCTGCACACCAACACACAGCTGTGCTCTGCCTGCAAGCCACCCTCCTGGCGCTGGGTGCCCAGCAGGGCTCACCTCCCCTTCCCATCTGCAGCTCCTCACCCAGGCTCCCCATTCCCCACGCCTGGGACTCAGCCCAGAGAGCCCTCCTGGTGCCCTGTAGGTCTGGACCCAGTCCTGGAACACCCCTCTCCCCCCCATCCCAGATCATTGCACAGAGATGAGAAAGGGAGAGCTACCTTCCAGACCCACAACCCCCTTCCAGAAGCCTTTTTAGGCTCTGGCACCCAAGTCAAGCCTTTCTGTGAAGGGAATGTAGCTCTAGGGAGTGCTGTGAGAGGGGAGCCAGCTCTGCTGCTGATGTGGCCATGCAGTAACACTTTGGGCTTCTCTTCTCTACCGCAG
Seq C2 exon
GGTGACAGCGGTGGTCCTCTCATGTGCAAAGATAAAACTGCTGACTACTTCTGGCTCATTGGTGTGACCAGCTGGGGGAAAGGCTGTGGGAGAATACAGCAGCCTGAAAGGTATGCCTCCACTCAGTACTTTCGCAACTGGATCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023986:ENSGALT00000040436:4
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(21.7=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGGAATATGTCGAACCATACCG
R:
CCAGGATCCAGTTGCGAAAGT
Band lengths:
302-711
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]