GgaINT0123834 @ galGal3
Intron Retention
Gene
ENSGALG00000004852 | E1BV15_CHICK
Description
NA
Coordinates
chr17:5682965-5683949:-
Coord C1 exon
chr17:5683882-5683949
Coord A exon
chr17:5683104-5683881
Coord C2 exon
chr17:5682965-5683103
Length
778 bp
Sequences
Splice sites
5' ss Seq
CAGGCACGT
5' ss Score
2.9
3' ss Seq
CCCCTACCCTGGGTGTTTAGAAC
3' ss Score
5.03
Exon sequences
Seq C1 exon
ATGGAGTTTGATGAGAAGGAGCTGCGACGGGAGATCAGCTATGCCATCAAGAACATCCATGGTATCAG
Seq A exon
GCACGTATCATGCACTAGGCAGACCAGGCTGCGTAGTCTTGTAAATACCTCTAGACCTCCCCAATGGAGTTGAAGACTTCAGAGGTACGGTAGGTCTGCCACAAGGGAGAGAACTTCCTCGGACACCCTGGTGGTTTGAATCTGGGAGTAGGGACGAAGTAGATTGCTTTCTGTTCCCGTGTGAAAATTGCAGAAGCCTAAAAGGTAACACAGCTTTGGTGACTGGTTTTCTCCCTCTTTATGTTTCTACATAAGGAAGGACTGAGGGATGCAAGCCCGTACTGCTATTTCACTGAGTTTTAAACGTTGGTTTTCACGTTATGCTTCCATTTTTACCAACATCCAAGCACCTCCTCCCCTGCAGGTGTGAGGGGGCATTAGGGTGCCCATCACCAGGATCCCAGCGGCCCCAGGGATTGAGTCCCAGAGCACAGTCAGCAAATACAGTTGCAGTCCTTCTCAGTGAAGGTTAACTGCCGTAACACGCAGTCCTGAGACACTGAGTCGTGTTGTTCCTGGGAAGGTGACTATAGAGCCTGGTGCCCGTTGTCCAGCTGGGATCCATTCTGCCCTTACACGTGCCTCTGGGGAGGTGCCAAGCATCCCTATTTTCTCTGGACTCCAGGACTGGTCTGAGGGGTACGATGCTCCCAGCCCTGTGTGCGGGGTTTCAGTGGTGGTGGTGCCTGCTCTGAGATGCGTGTGTAACGTGACATTCTCCTTGCCCCTTCTCCCCCCCCCTTCCTGCCTTGTCTTGTCCCCTACCCTGGGTGTTTAG
Seq C2 exon
AACCGGTCTCTTCACACCCGACATGGCCTTTGAGACCATTGTGAAAAAGCAGGTGAAGAAGATTAAAGAGCCTTGCCTGAAATGCGTGGACATGGTTATTTCGGAGTTAATCAATACCGTTAGACAGTGCACCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004852:ENSGALT00000039847:9
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:
PF0103115=Dynamin_M=FE(7.4=100)
A:
NA
C2:
PF0103115=Dynamin_M=FE(15.5=100)
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:
ATGGAGTTTGATGAGAAGGAGCTG
R:
TTCTTGGTGCACTGTCTAACGG
Band lengths:
206-984
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]