GgaINT1023071 @ galGal4
Intron Retention
Gene
ENSGALG00000012123 | Pax-6
Description
Paired box protein Pax-6 [Source:UniProtKB/Swiss-Prot;Acc:P47237]
Coordinates
chr5:5228919-5231603:-
Coord C1 exon
chr5:5231462-5231603
Coord A exon
chr5:5228995-5231461
Coord C2 exon
chr5:5228919-5228994
Length
2467 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CTCCGTCTGCTTTGTCCTAGAGG
3' ss Score
8.03
Exon sequences
Seq C1 exon
GACCTCGGCATCGCACCGCCGCCGCAGCCTCAGTGGAGACAAACTATTCTGCGGGCAACTCTTTGGGAGCGCGTCAGTGCCCGGCGGTGCGCCCCGTCCTGCTGACAGCAGCGGTGCCGCGGACGGGATATGCCTCTGCGAG
Seq A exon
GTGAGTCCGCGCCGCTCCCCGCACCGCTCCGCAGCCCCGCGAGGGGCTCCGCTCCCCCCGCTCCTCCTCTCCATCCCATTTGCATTCCGCGGAGCTCCTGGGGAACTTTCCGGCCCGCAGCTCGCAAACTTTCTGTTCTCGCGCGGTGCCCTCTGGAAGAGCCACGCTGGGATACTGTGGCCAGCAGCACCGCGTCCCGTGGCACTGCCGGGCCGTGCGGGGCCGTAGGGGCCGTGTTGGGCCGTGCGGGCCCTGTGCGGCGCCGGGCGAGAGGGAGAGGGCGGGCGGGCAGCGGAGATGCCCGGGGGGCCGCTTTGTGCCGCGGGGCTCGGCCGGGGCCGGGACGCCGCTGAGGCAGGGGCTCGGCCGCGGGAGTACGGTTCTCGTGGCTCGGGGGGGAAAGAAGACGGGGAGAGGCACCGCGTAGGCCGAGGAGGCCGGGCCCGAGCGGGGCTGAGCGTGGCAGAGGGGCCGCAAACTCTGCTCGCCACCCCGGGCTCTCCCCGAGCCTCCCCGGCCCCGCCGGGCCCAGCTCCGCGCAGCTCCGGCTGCTGCTGTGTCGTACGGGATCTGCTTCGGTTCTTCTCGTGACCCCCCGCGATACCGGGCCTGGGACCCCCCTCTGCTCCAAAGCCATTTTCTTTTACCTTTTTTTTCCCTCCTTTCTTCTTCTTCTTCTTCTTCTTCTTCTTTTTTCTCCTTTCTTTTTTCTTTTTATCATTATTCTGTAAAGAAGTTGCAAACTTCTCCGCGCAAGCAACAAAGTTGGTTCTTTTCCCCCCCGGGTTCTTTTCCCCTCGCAAAGTGCCATCGGAAAATGAGGGTTGGGCTGTCGCCCGCCCGGAGGTGTCACACCGCGGTCACTTCGGGAAAGTTGGGACAAAGTTTCGTGGGCCGCCCGCACGGGCAGGTGCTGCGCGGGGGCAGAGAGCGGCGGCGGCCCCGTCCCGGGGACATAAAATAATCAAAGGGCCTTCGCCCATAAATGTTTACAGCCGCTGACCTTTCCCGGCGCCCCATCGCACGGCGATTCGTTTTGAGCTTTTACTCCTTCGCCCCGAGAAAGGGAAAGTTTGTCACCCTCAGCCCTCGTTGCGTTTCTGCAGAGGGAGAAGGGGGGGGAAATATTCCGGAACGTCACCGGATCGGGGCCTGAAGCCCGAGCGGCGAACGGGGCCCGGCCTGCGGGGTTGGGGCCCGCACCGCACCGCCCCGCACCGCCGCGGGGCTCCCATGTCCGGGCGCTGCCGCGGGGCTGAGTCGTGCGCAGTGCCCCGTCCGCCTCCCGCTCCGCGCTCGGGCTGCGGCCGCGGTGGGGGCACCTCCGGAGCCGGGTGGCTGTTGTCTGCCCTTCTTCCCCAGCGCCCGGTGCGGGTGGCAGCGGCGCGGTAAATATTTACCGGGGAACGTCCGCACGCTTCGAGGAGCGCTCGTTCGGAGCCGCTTCTTGTGGATTTCAGGTTCCTAAAAGCCGCTCCGTAAATCGCAGCGTGGCTCGTCCTGAGTGAATCCCGTCGTTTGCGGGAAGAGCAAAATTGATATTTATTATAGGTGCAAAAGAAAAGCAATGAGTATTTGTAGGCTTGGAAAAAAAGCAAAACAAAACTAAACAAAAAACGGAGAGAAAACGAAGGCTGCGACTATTTCATCATTTTAGCTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTAGCTACCCCCGTGAATGGGCTCTTTATTGTAATTGTCCCTCCCCAATTGAGCGCCCCACTGCGCTGTTGTATCTTTTTACAGCCCCGAACAACGCGCACCAGTAACACAATTACCGCCGATATTTATAACGAGAAGAAATCACTGCTCCATTCTCCCCCGCGCCGCGTTCGGATAAATAAATACGCGGGGGGAGGGTCGGGAGGGGGGACACGTAAATAAATAAATAAGTGTCGGAGGTGCGGATGAAGGGAGGGGGGGAAGGAGGGGGAGGAAAAAAAAAAGAAAACGGCAGCAAAACCACACGCAAAATAAAATGCAATAACATAAATAAAACCGAAAGAAATAGGGAGAAGGAAAAAAAAAAAAAAAGCGAGAGAGAAAAAAAGGAAGAAGAGAGGCGCTCGGGCCGGGCCGTGCGGGGCCGCGGAGCGCGTTCGGCCGCGCTTTGTGCGCGCTGCGCCGGGGCTGCGCGGCCGGGAAGGAGCTCCTGCGCCCGGGGTTGGGGTAGCGGAGCAGAATGGAGGCCATTGTTCGCTTTCTGTAGGCTTTGTTCGGCGGCTCTCACCCCCTCCTGTTCGTACTTTTTAAGGCAGTGAGGCGAGGTAGACAGCGTGTGTCACAGTACAGTGCGAAGGGGGAAGATCTAAAGAGGAAAAAAGAAGTTAACCGCGAGGCGCGGAGAAAAAGTTGCGGGGAGAGGGGAAGGGACGGAGGGAAGGAGGCGAACGGGGAGCGGTGCTGCGCTCCTCTAACGCGCTCCGTCTGCTTTGTCCTAG
Seq C2 exon
AGGGCCGCCGGGAGTAGAGGCACGCAGATGTGCGAGCCCCCACGCTGCAGGAGAGGACAGCGCGCCCGGCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012123:ENSGALT00000019805:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
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]