GgaINT1014052 @ galGal4
Intron Retention
Gene
ENSGALG00000026745 | GOLGA7B
Description
golgin A7 family, member B [Source:HGNC Symbol;Acc:HGNC:31668]
Coordinates
chr6:21832194-21834081:-
Coord C1 exon
chr6:21832872-21834081
Coord A exon
chr6:21832320-21832871
Coord C2 exon
chr6:21832194-21832319
Length
552 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
ACCCCACTGCCCCCCCCCAGGTA
3' ss Score
10.4
Exon sequences
Seq C1 exon
CTTTGTGGGGGTGGGGAGCACTGTGGGAGCCCACAAGAAAGGCTCAGAACTGAGGCCCAAGGGGACGCCCAGTGTCACAGCTCCAGGGTACAGCCACCAGCTGTGGTCCCTTACCACCCAGCCCAGCTCCCAGGGGGGGAACACAGGCGGGCACAGCCCAGGGGATGCATGTGGGGGTGTCAGGGACAGTTGTGTCCCCCACAGCCGCTCTCGGCCCCTCTCCACTGCTTGGGAGAGTGAACCTCATCTCTCCACAGGCGAGACATTGCCATGGCAACTGGCACGGCCACTGCCAGGCAGGAGATGAGCGGTGACGCAGTGTGACATGCAGTGTGGGAAAGGGACATGGGTGTGGGGGCATCCTGGGACACACCTGGGTATGCACGTATGCCTGCAGGGATGCACATATCCCCAGGTGTGGATATGCGCAACCCCAGATGCAGATCTGTGCATCCCCAGACGTGTGTGTGCACATTGCTGAGGCTCTGCACCCACCGCTTGTTGCTTTTTTTGCCGGTGTCTCTGCAGGTGCAGAGGAAGGGCTTGTTGCCCTTCCACCCTGCACGGGCCCTGTGCCACCACACATCACCCCCTCCCCTGCTGTGCCCTCTTCCTCTAGGGAGAACGTCTGTTTTCTCCCCGTTTGCCATTTCTCTGCCTCTAATTGAGCTGTCAATGGGCAGAGATAACAGGGAATCTGTTAGCGCTCCTCTCTGATGTCTGCCTGCGCTGTGCTTGCAGCACCCGCTCTGCAGCTGCAAATTCTGCACGAGAAGCACTCAGCCACCTACCCGGGCAGGGCGGGCTGCCAGCCCCACGCCCAGCCCCCCCAGTACCCCCGTGTCCTTCCCACGGCATGCAGCCCCCCGTTACCCCCGCGCCCTCCATGCCGCAGCACCCCCCGGGGAGCCACTTCCCAGCCACCCCCACAGCCGCCCCCGATCGGTCCGGCTCCCCCCGGGCTCGGTGCAGGCAGCAGCGGGCGCCCATCCCCGGGGCCGGGCGGCTGCGCACAAGTTGCGGCCGGGCCCGCCTCCGCCTCCGCCGCGCGGCTCAGCAGCACCGCGGACAGCGCCGGTGCCGCCCGCTCGGTTCTGCCCGGCTCGGTTCGGCACGGCCCGGCCCCGCCGCCGGCTCCCGTTCACCCGCGCGGCCCGACCCAGCGCAGCACGGCCCGGCCCGGGGCGCACGGAGCGTCATGGCCACGGAG
Seq A exon
GTGGGTGCGCGGGTGCCCGGGGCTGTGCGGGGTGGGGCTGGAGCCCTGCGGGGTCGGCACTCACGGAAGGGTCCTTGTGCATCCGCGGTGCCTGCGGTGGGGCTGGAGGGGTGTACGGTTGGGGTTGGGGTGGGGTGTCCTTGATGGAGAGGTCCGTGTGGGGCTGCGGTATGAGGGGTCTGACTCCCTCCCTTTGTCCCCTTCATCCTCCTCTCCATCCCTGCTCTGATCCAACACCTGGAGGCTGGAGTGGGTCCCAGCGCCTCGCAGGGTGCCAGGGTTATGCCATCCCAGCCCTTCCTGCTGCACAGCTGCTGCAGCCCCACAGCAGCAGTTCCTTGCTCCCCTTCTCCTGCCGGCATCATCCTGCTGAGGACCGAGGACCATCCCTGTGCCACCATCAGGCCTTGTCCCACTGTGGACAAATGGCCATGCTAGGGTCTGTGGGAATGGTACCACTTTTCATAGCCCCACAGTAGGACATGTGGGGACCTTCTTACCCCACCACCCCCAGACTGAATCCCCCCAGCTCACCCCACTGCCCCCCCCCAG
Seq C2 exon
GTACACAGCCTGCAGGAGCTGAGGCGCAGCGCGTCCCTGGCCACCAAGGTCTTTGTGCAGCGGGACTACAGTGATGGGACCACGTGCCAGTTCCAGACTAAGTTCCCCCCGGAGCTGGAGAGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026745:ENSGALT00000044797:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF102564=Erf4=PU(22.6=61.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCCAGCCACCCCCAC
R:
CACAAAGACCTTGGTGGCCAG
Band lengths:
355-907
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]