GgaINT0078882 @ galGal3
Intron Retention
Gene
ENSGALG00000009896 | TRERF1
Description
NA
Coordinates
chr3:24022487-24027814:-
Coord C1 exon
chr3:24027739-24027814
Coord A exon
chr3:24022576-24027738
Coord C2 exon
chr3:24022487-24022575
Length
5163 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
GTATGTGTTGCTTTTTTAAGGCT
3' ss Score
7.67
Exon sequences
Seq C1 exon
GTTACTCTTGAGAAGCTGCTGTTGAGGAAGCCAGTGAGATTGAAGTGTCATCCTTTGGCAAATTACCACTATGCTG
Seq A exon
GTATGTTTCCTTGCAATCTCTGTATCTGCTCTGTATCCAGTCCAAGGCTGGCATCCCAGGCTGGTGTGTGGGATCCCGCTGCACTCTCTGCTGTCTGCTGCTGGGATGGCAGCCTCTAATAGAGGGTGATGTGGACAATGCTGAGTGGTACTTCCAGAGCCTTTTGTTTACAAGTTTGGCGGTTTTGCCTAACTAATGATGTACAGAAACCCCGTATTCATGTTTCTATGTAGGGTCCTGCAGGTTTAAAACTGCCTTGGGTATTTATTTTCCTTTTAACTAAAATTTAATATGTTGATCTTCTTTTAAAACTTCTACTATTCATAGATCATTGTTTTACAAGCAGCGAGTTTTCCTACTCTGGTGTGGAAATGTCTGCTGCATTGCCTTTCTCTTCCAATGCGGTGGTGTGATCAGTGACTGTGATAATCATGAGCATCCACCAAAAGAGACAGCGCTATAACTCTCCTGTGTCTTAGTGCTGAATGCAGAGCCTCTTTTTGCATGGATATAGCCTAAAAGAAAGAGGTTTGGAATGGTGTCAACTTTAACAAACACAGCGAAAATCTCATTTTGATTATGGAGCAGAAGTGCTCTGTGAAATACACGGAGTGATGTTATCATCACCTAAGCATAGCTCAAGATAGCAAATGTCCCTCCTCTGCAGAAGTCCACATTATTGCTCAAGGCTTTTGTAGTGCCTAACAGCTACTTTGACACATGGAATTTTTCGTAAGGGACATAAGACTTTATCTCCAGTTTGGGCTCTGGTGGAAATAAGCCAAGAATCTTCTGGTAGTCAGTCAGACAATCACAATATTCAGGGTGATATACTCATTTCCAGTTATACTCATTGTGTCACTTAAGTGTAGAATCAAGTTATTTGCTGACTGTAGCAGTTCGCTGCAGAGATTCTTAAGTAACAAAGACTCTTTTGTAATGAACTCCTGGCCAGGACCTGAGACAAGAACGGTAATGTGTCTGATGGCAGCTAATCACAAGGGTGAATGAAGGTGAAGATCAGATTTGATTCTTAGAGGAGGGAGATGCCTTGTGCCTTTGAAAACAATTCCATTGCAGTCCAGAGTATAGATATGGGGCTGGATGGAGGAGGACGTCAGCCAGGAGCTGTAACCAGGGTTCCTGGGGGTTCTTGTCTGAAGAGCTAACTCCAAAGCATATGTGAGGTGGTCCAGGGGAGGAAATCAGGGAGATGCTGAGAGATCCCAGCAGCCTCATCATCAGTGAGAGGTTCAATTAGCTCAGCAGATGAGAAATTTCTGCTTGTGTGGCAGAGGAGCAATAGCTTTCGCTGAAACAAATTCATGGTAGTTTTAATAAGTCTATTATTGTGATGCTGGGAGGAGCTAGGAAACATCATTTTATTTCATCTTTCACATGGGAAGATGCTAATGTTTGTACCTAGCACTGAGACCTGTGGACATTAGAGAAACTCTACTTAGGGAGGAAAAGAAATTGTCTGCATATTACAGCCCAACAAAATCTCAGCAGTGTGGATTTAAGCAACAGAAAATAACAAGACAAAGCATTACTTAATAATGCTCTTGAATGCAGCATGTGATTGCAGCTTACATTGACAGCTATGTTCTAGCACCGTGTAGCTCTTGAATTATAGTCTTTGTGGTTGATAAGCAGCCACTCGAGGCATATGGGAATTTCTCAAAATCTAATGTGTGAATACTTTAATATAACTTCAAGTGGTGTTTCTTTCAGTTAACTCTTTGGGCTTCCTGCTCTGTGTTCAGAAGTAACAGCTATCAGGAACAGCCACAATTTAAGGTGGAGTAGACCACAATAGAGCGTTACAGTGAACTCCTGAGAATCAACTGATACCACAGACAGTAAATATCCCGACTCAGCATTGCCTTCAGACAAGGGAGCAAGCGATAGCTTGTCCTTGGAACCTGTTGGTTTGTGAGAGGAAGTTGTAAAACTTCAGACCTTTCTGTTCACCAAGAGGGTGGGGCATGTTGACTGAAGGCTGCTTGGAAGAACACCCTAATCTCTTCATCCTAATCCTTTGCTGTCTGCTGGAGAAGAGAAGGCCCTGAGGAGACCCCATGGCAGCTTTCCTGAACTTAAAGGGAATTTATAAACAGGAGGGAGACCAACTGTTTTCTCTGTTTGATGGTTGTAGGATAAAGGGGAATGGTTTAAAACTGAAAGAGGGGAAATTTAGAGGAGATATTAGAAGGACGTTTTTTACTCATAGGGTGGTGATTCAGAGGAACAGGTTGCCCAGAGACGTTGTGGATGCACCATCCTTGGCCCCAGGTTGGATGGGGCCCTGGGCAGCCTTAGCTGGGGAGACAGCCCTGCCTATAACAGGGGGCTTGGAAGTGGATGAGTTTTAAGATCTCTTCCAACCCAAACCATCCTTCCATTCCATGATTCTATGATTTGTCTGGATGGTGTAGTAGGGAAGAGAGAGGGAGCATATGCTCAATACAAGAGGGGTGCTTGATTTGTTTTTCATTTAAGCAGTGGAATTTCTCAGGTCTCCTGCAGTAAGAATGGTGGGAAAGGTGGTCTCTGAATTAGTATGCTTCAGGCAGTCTGAAAACTTCTGATAGATGCTATAGTGTGTGGATCAGACCCAGCATATGCTGAATGTAATAGATTTGAGCTGCCTTTCAAGGGGAGCTCCCTGAGTGGAGGTGTAGTAAATCCTTAAAAGATATTTTTGTGAGTTAATCAGAGCAAAAACAGTATTTTAATATGGCAGAAATGTATAATAAATGTTTAAGCCTAAAGATCATCTTTAAAATTTGATCTGTATTCCTAAGTCCAAAATTCTTTCTTGCTGCATTGCAGATTTCTCTATACACGTTCTGTATGTCTCCCTCAAGCTAACAAGAGCAAAAGCGGTTTCCCAGCAACCAGAGTTAAAAACAGCTTTTCTTCTGTTTCTTTTCCTAATGCAGGATTTATTCTATTAATTAGGTTACTTCCAATTAACCCTCATAATCTTGTAAGGGTCTTTGCTAATACCATAGCTACTGGGGAAAATCTGTAAGGCCTGAATTTTCCATAGTTGTACAAGGGAATTCGTTCAAAGAAGTGATTTTTATCATTATTATTATTATTATTATTTCAGGAGAGATCTAGAGAGGTTTGCTGAAAACTAAAATCCATCCTTGGCTGTTGTCAAGCTTTTTGAAATGTTATTTTGACATAGTAGAATAGGTTTCTGGACCGAATCAGTGCATTTACCCCTTCTGAAAGGGAGGGTAAAAGCAAATGACTGGCAGGCAGTGTAGAAAGGGAGCAATGCTGGTTCAGGAAGGGAAAGACAGCAAGGCAGTGTGTCAGCAGAAAGATCTTTGGGTGATAACAGAATAAATAAAATTTGCTGCATGAAGCCAGTGCCTTTTTCTGACACTTAGACCGGGAGCTTTACTGTAAATCTCTGTGGAAATAGCTAATGCGTGCTTAGAGCCAGTACTGGAAAAGCGTACAGAAAACAGGTTGCAGAAAAGTTGATTTTGTAGTTTTCAGTATATAACAGAGTGGTGACATACTCTCTCTAGGCTTGTGAGCCTGGGAATTGACACTGAAAAGCAAAACATTTGCAGTTAATAAAAAATGCATATATTGTTAGACTTAAATAACCTGCAGAGTTGAATACCACACGTGGTGGCAAGCCCAAGTTAATTGAGTTCAATGCAGAGGCAAGCATTTGTGTGGAGAATGGTAACACTGACAGGAATATTCGGGATTTCTTTTAATGATGAAAGTTGCACGTACCCTCAGACGGTCTGTAGTAGAATCTTCTCAGAGTCATTTCAAAGGCATCTGCTTTATGGCTTCTTGTATATCCTTCTTTTAATGTATGTGATGCCTACTATTACAATCAAGACACTGGTATTTGATGCAGTAGAGCAATTCTGTGCTCCTTCTGTTTGACCGATACTGAGGAAGCGCACATTCATTTCTATTTAAATGTTGATTTTGCATTTTCATGGGCAGTTAGGCTGGTGAAGCAAACAGAATAATAATATTTGAAAGCTTTATATACAGCTTCCATTAACCGATCAGGAAGCACTTTGCATGGTTTTCATGCTGCTGTACTCTCTCTGTCTACTTGAGGCCTCAATCACAAAGAATTGGTGTCTTACCTCAAGCCACATACAAGTGAAAAGCTGCAAAGGGATTTTTTGAGAGTTAGTGCCTGGAGAATTAAACAATAGATGGACTTCCGTGTAGCTGAAGATAAAGTGGTGTATGTAGGAATAGGCAGTACAAGCACTGCATCTAAAATGATGAGCTCTGTGGTGATATTTGCCCATTACAAAGAGACCTTGGGATTATGATGGTAGTTCTGTGAAAACATCAGCTTTGTATTTTACAACAGCTTAAAGAAAAAAAAGCCACAAGTCAAATGTTAAGAAACTCGAGAACATGGTGATGCCACTGTGCAAGTCTGCAGATTGAGTATTATCTGCCTTTTTGGTCCCTGCATCTCTAAAGGAATGTTTTAGTACTGAAAAGTGTTCACAGATGGACAACAGTCATGGCCAGTGGTGTGGAAGTGACTTGGGCTTATTAGTCTGGAGAGGAGGAAAAAAATAAAGTGACAGAAGTGGAATGCAATCCCAAATAGCATGGAGGTGATGGTAAAGAATGGGTTCGTTTTCTCTTCCTCTTGAAGAGTGAGCGGTCATCCAGTGAAGCTACTTGGGAGCTGGGAATCAAAGAAAAGGAGGTGGTTTCTTCATGCAGAAGGTCTACTGATCTGCACAACTCTTTGGTAAAGGATACTGTGGTGGCAAGAGACCTAATTAGTTGGAAAGAAGATTGCATCAGCACTTAGAAGGATGGTTACTAAATAAGCAAATCGCAACAGATTAAAGAAATCCCCTGAACTGCAAGTGGTCAGAGGCTAGGAGAAGTTAGGGAGAGGCGTTTGTATTTGCTTGCCCTGATTTTACTGTTTCCTTGGCAACTGCCTGTGACTGCTGCTGGAGACAGAGCGCTGGTTAGGTGGACTTGAAGTCTGAGTCAGTACAGCCATACTTGCATTTGGGTAGCAGCAATCACAAGCATGTTCTTGAGGTTTCCCACTTTTGGTGTTACACCAACATAAAGGTGGTAGGTTTTTATTGCTTTTAACGAATTCACTGTATGTGTTGCTTTTTTAAG
Seq C2 exon
GCTCCGACAAATGGACACATCAAGAAAGGAGGCTGTTCAAAGAGGCATTGTCCACCTACAGCAAAGATTTTATATTTGTACAGAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009896:ENSGALT00000016090:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0024926=Myb_DNA-binding=PU(60.9=93.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
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]