GgaINT0123451 @ galGal3
Intron Retention
Gene
ENSGALG00000024348 | F1NFX9_CHICK
Description
NA
Coordinates
chr16:281490-282271:-
Coord C1 exon
chr16:282011-282271
Coord A exon
chr16:281766-282010
Coord C2 exon
chr16:281490-281765
Length
245 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CCACCCCTGCTGTGCCTCAGGGT
3' ss Score
7.35
Exon sequences
Seq C1 exon
GGTCGCACTCCCTGCGCTACTTCCTGACCGGGATGACGGATCCCGGCCCCGGGATGCCGCGGTTCGTGGCCGTCGGGTACGTGGACGACAAAATCTTCGGGAAGTACGACAGTAAGAGCCGGTGGGTGCACCCCATTGTGGAGATGCTGCCGCAGGAGGACCAGGAGCACTGGGACACACAGACCCAGATGGCCCGGGAGGGTGAGCTGGAGTTCTCCGAGGGGCTGCACAGGCTGCAGGTGCGCTACAACAGAAGTGGAG
Seq A exon
GTGAGCATTGCCGAAGCCACAGTGCTATGGAGCTGGGACGGGAGCTCTGTGGGGCAGGGGCTTCTGCCAGCCACACTGAGGGTTCGATGAGCCCCATGCCCTGCTATAGTGGGCTGTGTGTGTGTGGTGTCACCACCCTGGGGCTGCCCCGTTTCAGATCTCACCCACCCCATCCCAGCCCCACAGCACTCGCAGTGCCCAAGAGCCTACGAAGCCCCTCACCCCCCACCCCTGCTGTGCCTCAG
Seq C2 exon
GGTCTCACACGCTGCAGAAGATGTTTGGCTGTGACATCCTGGAGGACGGCAGCATCCGAGGGTACGATCAGTATGCATTTGATGGGAGGGACTTCCTCGCATTTGATATGTACACGATGACGTTCACTGCGGCGGATCCAGTGGCAGAAATCACCAAGAGGAGATGGGAGACAGGAGGGACGTATGCTGAGAGATGGAAGCATGAGCTGGGGACTGTCTGTGTTCAGAACTTGAGGAGATACCTGGAGCATGGGAAGGCAGCGCTGAAAAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024348:ENSGALT00000022037:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(49.4=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(50.0=94.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGGTGAGCTGGAGTTCTCC
R:
TCTGAACACAGACAGTCCCCA
Band lengths:
292-537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]