GgaINT0095063 @ galGal3
Intron Retention
Gene
ENSGALG00000023130 | HXA11_CHICK
Description
NA
Coordinates
chr2:32599362-32603906:-
Coord C1 exon
chr2:32603213-32603906
Coord A exon
chr2:32600880-32603212
Coord C2 exon
chr2:32599362-32600879
Length
2333 bp
Sequences
Splice sites
5' ss Seq
CCAGTACGT
5' ss Score
7.19
3' ss Seq
TGCCTTTTCTCGCTCCACAGGTG
3' ss Score
12.87
Exon sequences
Seq C1 exon
CTCAGCTAATGCGGAGAAGCCGAGGTAGCCCTAATGATGGATTTTGATGAGCGTGTTCCTTGTTCCTCTAACATGTATTTGCCAAGTTGTACGTACTACGTCTCGGGTCCTGATTTCTCCAGCCTCCCTTCTTTTCTGCCCCAGACCCCGTCTTCTCGCCCTATGACATACTCCTACTCCTCCAACCTGCCCCAGGTCCAACCCGTGAGAGAAGTGACCTTCAGGGAATATGCCATTGATCCCTCCAGTAAATGGCACCCCCGGAACAACCTGCCCCACTGCTACTCCGCAGAGGAGATCATGCACAGAGACTGCTTGCCTTCCACCACCACCGCCAGCATGGGCGAGGTGTTCGGCAAAAGCACCGCGAACGTCTACCACCACCCCAGCGCCAACGTCTCCTCCAATTTCTATAGCACGGTGGGCAGGAACGGGGTCCTGCCGCAGGCTTTCGACCAGTTTTTCGAGACGGCGTACGGCACGGCGGAGAACCCGTCCTCCGCGGACTATCCGCCGGACAAGAGCGGCGAGAAGGCGCCCGCGGCCGCCGGGGCGACGGCGGCAACTTCAAGTTCGGAGGGCGGCTGCGGCGGGGCGGCGGCGGCGGCGGGGAAGGAGAGGCGGAGGCGGCCGGAGAGCGGCAGCAGCCCCGAGTCATCTTCCGGCAACAATGAGGAGAAATCCGGCAGCTCCA
Seq A exon
GTACGTATAAAGGCAGCGCCCGAGCGCTTTCGGAGAGGGACTTGGAAATGTAGCGCACCGCCGCTGTTAAATTTTTATATGCTGTTTTATAAGCATATAAGGTTTATGAAGGGCCTTTAGATTTCCCCCAACAAAACTTTGTTATAAAAGGCGAGATCACGTGTTTAGTGCTGAAATTGGCCGTGAAATACCCACCGGGCGACGGATGCCTTTAAAAAATTTTCTTTCTCCTTCCTCTTTTTCCTCTCTTTTTTTTTTTTCGGGAATCGTCATAAAAGGGGGCTCTGCGGTCGGCTCGCGAAAATAGAATAACGTGCGTCGGGCGCCTGTAAATTCGGCGGAGAAGGGCGATCCCGGCTCCTTTGATACCGATGTAATCCCGTGATTTTATAAAAGCCATGTGTTGCACCGGGAGCCTAGTTAGGAGCCGCATTCAAAGCCATCGCCGCTTTAACGATTGCGCTCGAGCCGCGTCGAGCAGATAAAGTAGCCGCCTGAACTGTAGCAATATATTAAAAGAAACAAATTAACCTAAAGCTGGCCTTTTTGTCTAAAGGAAGCCATTTTACTCGGGCGCTGTGGCAATTACGCGTTGCCTTCTGTCCAACAGTTTGTTACTTACAATTGTTATTCAATCTGTCAAAGGCTGATTTTTTTATGTGGGCTTTTTAAAAGGCAACGCCAGTATACAGCTCGGGGAAAAATACCTCGACAATGAACTGTACCAGAAAAGGAAGTTTTTAAAGGGGTAGCGGCTAGATTGAATGCGAAGGGCTCCCGAGCCTCGAGCCCTTTTCTATTGCGCTTAATGAACTTTAAAACCGCGGCGGCGAAGCGCGAGGAGAACACCCCGAGATGGTGGCTGAGCGCGCTTACAAAGCTGCCGGCGGAGCGTGCGGCGGCCGCGGCCTCGGGGCCGCGCGTTGCCGGGGCCGTGCGGTCGCTCTCGGCCTCCGGAGCGCGGAACGGAGCCCCGCGGGGTGCCCGGCTGCCGCGGGGGCGGCGGGTGGCGGCCGCTGCCCGCGCTCTCGAGGTGGGCTCCGGCGGATCTATTTTTGATCACAAGGACTGAATATCTCTGCACATGGGAAAGGAGAGAGGGAAAAGGGAAAAGGAAGGGCTCTGCCTGAACACTGACGGCTGAAACTCTCCTGCTGTGTCAATCATGTAATGGGATTTGTTAGACTTATACCGGGGTAAGTTTGGCGCTAGTAGGGCAGGATGAGACGGATGGGTTTTATTGAAACTACTGTGAGATCAAAGCAAATGGCACCCCAGGAGGGACGGCTCATCCCCAAGCTGCTCACTAAAGCTTCTGATCCAACTGTGACCTCAATGGCACCACTGAAGAGCTTTTGCGTGCTAAAGCGCTTTGTATTCCAGCTAAAACGCCGGGCAGTGTCCTTAGGGGTCGTGCAGTGACAGCCATAGATGAGGCACTCTGCCGGCTGAGCTGTTGCCCGCGGATTCCATCACTGCCCAGGTCTCTGCTGCTGCGGATGAGGAATTCCACCAATATGGCGATGACATCTCATCTGCCGGACGATAGGTCGTCTTTTTACATTGCAAATACCCATAGTTATGCTGCTCTAATGTATCCGGTGGTGTTAGCCGCGGAATTTAACCAGTCATATTGACCGCGCCTTACATTCTATGATCCAAATGATCGATTTTAAAATTGCTCTTTCTGCTGGAGGGCAATTCTGCTCGTGTGTACCAGCAGGATCGTCACTTTTCGAGGGGGGGTATCTCGTTATACAAGTGATCTGGCAAGCTAGTCCACTGCTTTTTTTTGGGAAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGGGGCGCGGGGGGCGCGGCTGGCCGCGCTCAGCGCGCCAGCTCCGTCGAGCGCTCCGGGGGCTCCTCCCGGCCCCTCGCCCCTTCCTCCCTCGGAGCGAGGCCGCAGCCCCGCTGCCCGGCGGGGTTCCGCCCTGCCCGGGGCCGGAGGCGTCCCGGTGGGTCCCGGCTCCCCGCAGCCCTCCGTGCGCTCGGCCCTGCGGCTGCCGAGGGCAGTCGCGGAGCGGGCGCAACGCGCGTTGTACCGTGTCGAGGTGCTTTGCCCCGCTGTCCCCCCCCACCCCCACCCCCCGGCCCCGCCGTGACAAACCCTTCTGCCTTTTCTCGCTCCACAG
Seq C2 exon
GTGGACAACGGACCCGTAAAAAGAGATGCCCCTACACCAAATATCAGATTAGAGAGCTAGAAAGGGAATTCTTCTTCAGTGTCTACATAAACAAAGAGAAACGCCTCCAGCTCTCCCGAATGCTCAATCTGACCGACCGCCAAGTAAAAATATGGTTTCAAAACAGAAGAATGAAAGAAAAAAAAATTAACAGGGACCGATTACAATATTACTCAGCTAATCCACTACTTTAAAACTCGTAGCGTTTTTCAAGACGAGATTAAATTCAGATTTCGCCCTTGACAAGGTCAAGCCACGAGGTTACGTGGAGGAAGGAGGTGTGTATCTGACGGGACTCGAAGAACCCGAGGTTTTCCGTACATGTAAATCTGCTCTGGACCTTCCGTGACGGTTTATTGTTTTGTCTATATATTTACGTACCAACTGGAATCGGTTTGATTTTGCCACACGTGGCGTCCATCCATTTCCACCGCGCGCGTCACCTCCGAGCGCCCGGCCCAACGCCTCTCACCTTCCCGGGCACCGCGGCTCCGGGAGGGGACGGGGGTGTCCCCGTGTCCCGCTGCCCCCTCGGAGCGTGGCGTGGGCACCGGCACCGCGAGCGGCCGCAGCCGGGACGCAAACTTTGGGAAACGATCTCTCTTCCTTCCCGGAGGAAAAACGTCTGTGGTTGAGGCAGTGCGCCATTGCCCATGGGTTTGAAAGGGGAATTAAGGGAGGGGGGAGAGAAGTAAAGGGGAGGGGGGGGGGGGGCGACGTGCCTACACCTTCACGAGGCCGACCACGAGCAGTTGTAACGTGGATGTAGCGATGGGTACGATAGTGTTTCCTTTGGGGTGGGAGGAAGCGGGGAAGGGGGTGGGAAGAGAAAGAACCGAAAGACTGAAATATTTACTTTAAAAAGAAAAAAAAATCAGGTATAAATTTTGCCATACATCGCAAGGAAACAATCACTGAAAAGGCAAAGAAAAGAAAAACAAAGCGAAGATTTCTCCAGTTGTAACTAGCTCTCGTTTTATTTATGACAACGGCCTGCGCGTTGCCATCTTTTCGGAGACAAATCATATTTAAATGCTAAAAATAAAGCGTCAAAGGGGGGGAAAAAAAAGAAGTGTGAATTTCAGCGTTTTTAAAGAAAAAAAAATAAGGAGAGGAAACGAACCTCCCGGCTTCTGGCTCGCAAACTTTCTTCAGGAAATACCTGTGGAGAACGACAGTTTAGCAAATACCACACAACACTTAATTGAAACTTGGAGTTGTGCAATGCGCTAACGTTGGGTCATTAAAATAACTCAATCGCATGCTCTTGTAAAGGTGACCAGTGAGGAGTCGAATCAGAAGCCAAACAGTGTAAATACGGTCGTTTTGTTGTCGTCTACTTTAAATGTCACGAGCTCTACTTTGTCGCCCAGCCGACGTATGCAAAGAACGGAGAGTTGTTCGGAGTTATTTTAAGTATCTATAAATATATATATTTCCCTGCAGGAACCAAAGCGTGAAAAAATAAAATAAAAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023130:ENSGALT00000037819:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.441 A=NA C2=0.266
Domain overlap (PFAM):
C1:
PF120453=DUF3528=WD(100=67.3)
A:
NA
C2:
PF0004624=Homeobox=WD(100=73.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
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]