GgaINT0092709 @ galGal3
Intron Retention
Gene
ENSGALG00000007588 | F1N890_CHICK
Description
NA
Coordinates
chr2:16179053-16179996:-
Coord C1 exon
chr2:16179907-16179996
Coord A exon
chr2:16179227-16179906
Coord C2 exon
chr2:16179053-16179226
Length
680 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
CTTGTTGATCACCACTGCAGGTG
3' ss Score
6.93
Exon sequences
Seq C1 exon
CCTCAGCACACAAACGTCTGCTTCTGGTATATACCTCCCAGCTTGCGCGGCATGGAAGACAATGAAGAAAGGATGAGCCGCCTCATGAAG
Seq A exon
GTAAGCAGCGTCTCCAGGGTGTCATGCACTGAGCAGCAAAGACATTACAGGCAGGCAGGCCCAGAAATGATCTTCAGGGTCTGGTCACCTGGCTGTATTCTGGCAGATGATACTTCCATGGTCATCTTGCTGCAGGTTAGTCTGGCACCACTCCACTTTGGCCTCCAAGTTCAGTATTCTTGAGCTGTCCTCTTCTCTAGAGTTCTTAATGGAACCCTGTGTATATTTACTGAGGTTAACGTAAACAGCAATGAGTGAAGCCCACAGAGACAGCAACGTCTATGCTCTCTGTCATACAAAAAGAAGATGGAAAACAATTGCAACTTGTTTTGAGCACCACAAGAACCAGTTACCGTGTGCTAATTGCCTGTGAGCAAAACTGAGAAAGTAGGAGGGAAATTCCCCAGCAGTTTAAAGAGCTGGACAAAGAAACTGGATAAACCCAGTATCTTTCAAATGAGCCACTTATTCCTTAGCCATTTATTCCTGAATGGAGGTTAACTGCTTTATCAATATTGGACTGATTTTCACCTTAACAGCTTCTTACATCCCTTCATCCTTACAAAAAAAAAGAGTAAAACAAAAACCAAACCCAAACAAAAACCTCTGCTTTTTAGTTATAATAATAGTAATAGTAATCATCGTCATCATCCCCTGCTTCTTGTTGATCACCACTGCAG
Seq C2 exon
GTGGCACCAGTGATAAAAGCCAGGATGATGGAATATGGGACGACCATGGTGAGCTATCAGCCTCTGGGAGACAAAGTGAACTTCTTCCGGATGGTCATCTCAAACCCAGCAGCAACTCATCAGGACATTGATTTCCTGATTGATGAAATAGAGCGCCTGGGACAAGATTTATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007588:ENSGALT00000012268:12
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:
PF0028214=Pyridoxal_deC=PD(2.7=33.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCAGCACACAAACGTCTGC
R:
ATAAATCTTGTCCCAGGCGCT
Band lengths:
262-942
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]