GgaINT0051382 @ galGal4
Intron Retention
Gene
ENSGALG00000012123 | Pax-6
Description
Paired box protein Pax-6 [Source:UniProtKB/Swiss-Prot;Acc:P47237]
Coordinates
chr5:5227190-5228778:-
Coord C1 exon
chr5:5228724-5228778
Coord A exon
chr5:5227321-5228723
Coord C2 exon
chr5:5227190-5227320
Length
1403 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
GGGCGCTGTGCTTCCCGCAGGTC
3' ss Score
9.84
Exon sequences
Seq C1 exon
ACCGCTCCAGGCGAGCCCCGCGGGACCCCGCTGCCCCGGCCCACCATGCAGAACA
Seq A exon
GTAAGTGCCGCGCGGCCCTGCGCGGCTTTTGCGCTCCCGCGCACGGGCGAGGGGCGGACGGGCGGCGGCGCGGCGGGGTGCGCGACCTCGGAAAATCGCGGCGGCGACGGCGCGAGGTCGGGCGTCCCCACCGCGCTCGGGGCCGGCGGCGTCTCCGATCGGGACGGCGGAACAGATATCATTCGGGTGAAGCCTTTATTTTGTTTAAAGGTCGCGGCGGGCTCTCCAGGCTTTGTGTTAATAACTCCTGGGTGTATATGGTGCGGGGCGTCCAAATTGACACCATATGCTTTCCCATTAGACGGCTGGCCGTACAACACGAGGCGCATAATCATCGCCACTGGGCGAGAGCCGCGCGGCTCTCCAGGGAAATTACCGCGTGATTAAGGCTTAACCTCTTCCGCGAAGCGCCGCGGAGCGCACCCTCAAACCGCGTCCCCGACCCCCCCCCGCCCGACGGGGCGCGCGCGGAGGAGGAGGAGGAGGCGCCGCTCCCCGCGGCCGCTGCGCGCCGGCGTCGGGTCGGGTCGGGGGGCGGCGGCGCGGTGCCTCCCGCCCGGGTGTCACTTCGCATCCATTGCGCGGGGAGCGCGGCCCCTCGGCCGTGTCCTGCACAGCCCCCGGCTGCCTCCGAGCGCGGCCGCCCTCGGAGGGAAAGCGAGCGGAGTTCAATCTCGTCTGAGTGATATCCAAATGCGGACGGAAAGGGTCGTTTTATCATGCTACTATTTGTCGTGACGATGCAATTTTCAAAAGCAGAGGACTGTCATAAAGTGACACGCCTGCCACAAGTGCTCCAACTGATCTTTTCAATTAGCCTTCCATGCATGATCCGGGGCGACTTCCGCCTATTTCCAGAAATTAAGCTCAAACTTGACGTGCAGCTAGTTTTATTTTAAAGACAAATGTCACAGAGGCTCATCATATTTTCCCCCTCTTCTATATTTGGAGCTTATTTATTGCTAAGGAGCCGGGGCTCTCGCAGCCCATTTATCAGGAGGCTCCGACGAGAGGAGAGCGCAGCGAGCGCGGAGCGGCGCTTCTCCAGGGATCGATCCTTCCCCCCGCCGCAGCCCCAGGTCGGCCGCCTCCGAGCAGCTCCGGCGGGCCGAGCCGCGCCGCGCGGGGATGCGGCGGGGACGCTGCAGGGATGCGGGGAGGACGCGGGGACGCGGGGAGGATTTTATTTCATTTTTTTACATTTTCGGGGGCGGCAAAGAAAAAAAAAGAGAGAGAGAGAGAGAGAGAGAGAGGGAGAGAGAAAGCGATCCGAGGAGCCGACCCCAGCGGTGCGCAGCGCAGCCCCGGCGTTGGGCTGCGCTGGGGGTTGCGGGTTTAGGGACGGGCGGTGCGCGGGGCGGGCGGTGCGGGCCGGCAGTACCAGGGCGCTGTGCTTCCCGCAG
Seq C2 exon
GTCACAGCGGCGTGAACCAGCTCGGCGGGGTGTTCGTCAACGGGAGGCCGCTGCCCGACTCCACGCGGCAGAAGATCGTGGAACTCGCGCACAGCGGCGCGCGGCCGTGCGACATCTCCCGAATCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012123:ENSGALT00000019805:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=NA C2=0.727
Domain overlap (PFAM):
C1:
PF0029213=PAX=PU(0.1=0.0)
A:
NA
C2:
PF0029213=PAX=PU(30.9=97.7)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]