GgaINT0143070 @ galGal3
Intron Retention
Gene
ENSGALG00000001276 | E1BQM6_CHICK
Description
NA
Coordinates
chr27:3563906-3568218:+
Coord C1 exon
chr27:3563906-3564413
Coord A exon
chr27:3564414-3567986
Coord C2 exon
chr27:3567987-3568218
Length
3573 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TCTTGGTGCTTTTCTTTCAGCCA
3' ss Score
7.89
Exon sequences
Seq C1 exon
ATGTCCATTTCTGGGACTCTTAGCAATTACTATGTCGACTCTATTATAAGTCATGAAAGTGAAGACTCGCCTTCAGCTAAATTTTCATCTGGGCAATATACAAGTTCCAGGCAAGCTGGGCACAATGAACATCTAGAATTCCCCTCTTGTAGTTTTCAGCCAAAACCTCCAGTTTTCAGCGCCTCCTGGACTCCTTTGAATCCACATTCTTCTGGTACCCTTCCTGCCGTCTACCATCCATATATTCAACATCAAAGCGTCCCATCTGATAGCAGGTATCTACGGAGCTGGCTGGATCCAGTGCCCAGAGCAGAGACCCTCCCCGGGCAGGGATCTGTTAAGGCAGAGCCGCTGCTGGGCCGTCCCGGGGATGTCCATAAACAGGGAACACAGGAGTACAATTTAGAAACTTCTGCTGCAAGGGAAGGGATCGTTTCCAATCAAAGGCCCAGCTTCGAGGACAATAAAGTTTGTGAAGGAAGCGAAGACAAAGACAGAACAGATCAAA
Seq A exon
GTAAGTTATAAAAGTGAGGAAGTAAACAGTATAAAAGCTGGAGGAGGTGCAATAAAAGGGGACAATGCTGCGTAAGGTTTAAAATCAGGGCTTAAAGAAAACTCTCAGATGGCTGATGCCAACCTAAGGGGAGAGGTGGGGAGGGGAGAGGGGTGGCATTGTTTTTGCGGGGAAATACAAATAAAAATTAAAACGAGCGTCGTCTCCGACCAAAACAGAGTCCAGAGCGGACAAAAGCTGGATCGAGCCGTCCTCTTTCCTACAGAGCGCTGACTCCGGCAGCGGAGATCATTGCTGTAAGCGGGAGTGAGAGCGTGAGGGGCTGCGGGCGGAGGGAACGGAGGGACGGGGCGGGGGGGGAGAGAACGGGGAAACGTCGGGAGAAGGGCCGGGAGAGGAGAGCGGAGGTCGGGGGAGAGAGGAGAAGGGGAAAATCGCGGAGGAAAAGTTCACGTGGGGGGGAAGTAAACAGCGGCGGGGGCTTTTCCGTGCCCGCTGAGCTGCGCTGCGCCGGCAGATTGCGGGCTCGGGGCTCCCCTTCACCTCGGGGTTGGTTTGTTTGTTTTTTTTTGCTGCCGAGTTTTGGTCGTGGGTGTATTTGTTGTGCGTAGTTTGCTTGGTTTCTTTTTTCCCTTTCCCTCCCTTTCTATTCCTTTTATTATTGTTGTTGTTATTGTTGTTGCTATTATTATTATTATTGCACGCGTTCGCTTATTTCTGTTTCGAATTGCTAGCATATTAATGCCTCAGTTCAGGGTCTGACTATTTCAAAGCCGAAATATCACTATTTCCAATTTCCCTCCGAGTTGAGTTGAAAAGAGAGAGAGGAGAGCGCTTCCAGCTTAATTAGCTCTTTATTTGTAATATAGCCAGATTGGAGAACAGCTAAACTTCAGCGTGTGCCTTTTTAGTGACCTGGTTTCTCTTTTATTCACCCTGAAACGCAGAAAGAAAAATCGTTTTGATGTATTTAATAAGGTTATAGTTCATTCTGCTTTGCAATATGCGTTGTTGTTATTACTAAAATGACGCAAGAGCGTTTGAGTGAGAAAGAATGGGTGCCTTCACCCCGTGCCGGTTCGGTTCGTACCCGGGGTCCATCTGGAAGGTGGAAGGGCTGTGCGGGAGGAGAGGGAGAAATTTGGCTCCGGCACAGCGGTGAACGTTTGCGCAGTGAAAGGCGAAGTTGTGCGGAGTGTTGGGTTGGGAAGGGCAGAGAAAGCCCCCGCCAAAGGCACAGCGTGCGGAGCGTGTGCAGGACACCCTGGCACAGTCACTCCGTGAATTAACTTCATTTTGGTTTTTCCACCCCCTCTCAATCCTCCCCCCTTAACCCCTCACCAAAGTGTAAGAGCAACAGTATTGAAAACGCGGTGCATTCCCCTCTCCGTGCGGTACGATGGTGCGGGGGCAGGTTTTTTTTCCCCTATCGTTTGGCTTGCACCGTGCACACGCACTCCACACACACACACACACACACACACACAAAAAGAAAGTCCTGTTCTATTGTGCTGGGCAGAGATCCAGAACAAACTGCAAGCGGGAGGTGAATGGTCGGAGAGAATGAAATATCCAGGTTCTGTGCTCAATGTCCCTGAAATTCAATATAGAAAAACCTCGTCCAAGAAAATGTTATTAAGTCCTAAGTAAGCGCGGGGACCCGCGCTAAGAGGATGCAGTGCGGTTTCTCTATGGCGTGTGGTTACGACGCATATTTTGTTTTAAATAATAGTTTAATTTGGGCTAATGTTGAGAGGCTGCCAGGGCTGGGAGACGGAGCTGTTTTGCAGAAAACGCTCCCACCCATTTCCCTGACTCTTTCAATTTTTGAAAGTATTTCACAATAATGAATCTCTGCGCCGGGTATGGCACCGGGATCTGTTAATTTATTTGCTAGGTTTGCAGGAAGCCATGTGCCAGAGCCTCCCCTCATTTGCTCGCCCGTTCAGGAGGGTGTATACAGCCAGTAAATAAAATATCCGCGTTTAAAATGCCTCAGATTTTAACGATCCGAGATACGACCAAAAAAATAAAATAAAATAAAACCCAACCAAATANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCTTTTTTTTTTCGCCCCCCCCTCCCCTCTCTGTCCCCTTTACCCGCAACGCTGTGCCTACGGGAGTGCACCCGCAGACACGTGGGGAAAAGCATCTGAAATAGATGCGGGATTTTGGCTTTGCTTTCTCCCAACGCAGGGAGAGAACATCAAGGCTGTACCTTGGGGATGGAGTGGGGGGGGGAGGATTCGGGCCCCCACGTGTGGGCAGGGCTCGCCTTGCCGAGGCCGGGCTGCTTTCAATCCGGCTCCCATCTCGGGTTCGCATATGCGTGTGTATAATCTTCATATTTGATGGCATGATGAAAACCTTCTGAGAAACACTCAGGCTGCATCGTATTGATCTTGGTGCTTTTCTTTCAG
Seq C2 exon
CCAACCCAGCTGCCAGCTGGCTGCACGCCCGCTCCTCCAGGAAAAAGCGATGCCCTTACACGAAATACCAGACCCTGGAACTAGAGAAGGAGTTTTTATTCAATATGTACCTGACGAGGGACCGTAGACACGAAGTGGCCAGACTCCTCAACCTGAGTGAGAGACAAGTCAAAATCTGGTTTCAGAACCGAAGGATGAAAATGAAGAAAATGAACAAGGAGCAGGGCAAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001276:ENSGALT00000001947:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.688 A=NA C2=0.288
Domain overlap (PFAM):
C1:
PF046178=Hox9_act=WD(100=99.4)
A:
NA
C2:
PF0004624=Homeobox=WD(100=73.1)
Main Inclusion Isoform:
NA
Other Skipping 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]