GgaINT0078877 @ galGal3
Intron Retention
Gene
ENSGALG00000009896 | TRERF1
Description
NA
Coordinates
chr3:24032822-24036807:-
Coord C1 exon
chr3:24036559-24036807
Coord A exon
chr3:24033192-24036558
Coord C2 exon
chr3:24032822-24033191
Length
3367 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGT
5' ss Score
7
3' ss Seq
TTCTGTATGTTTTCATTTAGGAA
3' ss Score
9.66
Exon sequences
Seq C1 exon
GATGAAGGAGAGAAACCACCACAGCAGCCGCTGCCTAAAGAGGTGGATAGCCTCGCGCCCATCGTCATGCCAGTGTCTGTCCCTGTAAAGCTTCTGTCACCCGAACCCAGCACGCAGCCCTCTGCCAGCACTACCACAGTCAAAGACAAGCCTGCCAACTCTATGTCAGATGATGAGATGCCCGTTCTCGTGAAGATGACTTTCTCTCCACCGTGCAGTCCAAAAGTGGCCAACCCCTGCTCATCCTCT
Seq A exon
GTGAGTGCTGCGTTTCTTGCCGCTAAGTCTGCTGTGTCTGTTCAATCCCTTTGCTTATAGTGCTGCAGTGTTCTAAAATGTCCGTATTCTGGAACATTTTCTAGAATCTTAATGATGCCTAATGAGCAAAAAGGGTGGTGGCATCATATCATTTCTTCTTCAGACCTTTGAAAATATTAATTTTCTCTTTACTGAGGAATTGAGACTTCAGCTGAAAACAAGCCGTTCGAAATTGGAATGTGATATTCTTTTATCCCACTACAACAAAGGGATTTAGTATCTTTTTACTGGTTTTGTTTTTCCTTTTCAGGCTGCTTTGTTTTTATGTTATTGCTTAAATTCAGCAGTTTCATTTCTTCCTGTTTTTTAAATCAGATATATGTGCTTCTCATTTCAGCTGTAAATAGGAAAGCAGTGTGCAGTACTTAATGTGTACTCTGAGCCAGTATGAACCTTGCCGACTGACTTTTACAATGAAGTCATTTTTCCCTTTCTGTCTGCATGCATTAGATCTAAGGGTTAATCACTGGGAATTCTGACATAGGAAAAATAGTCATGCTTACTGCTTTCGTGTCACTTATAAAGCTGAAATTGTCAGGCAGCACAAGGAACTGATGAGCCCTTGAATGAGATGTGAGAATGCTCTTTATTGTTTTCCTGAAGAGTCCTGAAGCAAGCGGTATTGTGTATTTCCTATTCCAGCACAGGAACAGATGCTGCTCGTTTCTTTGAATTCGTACTTGCAGACTATGTCATGAGAAGGGATTACTGAGGAGTATAAGTAGTCTGCAGTATTATCTCTATGATGTAGAGACATGCTCTGGTGAATTCTTTTTTCCTCCTCCTCATGAATGTGGTGTCAAGACGAGGCAACAACATGTACAGTTGTGGGTAGCTCTTTATAGTATTTGTGTATTTATCACCCTCTCCTGACCCTTCATTTGGACAAAGACGCTAATTTAAATACACAGAAAATCTTTTATCCATTTAGATGGAGGTTTTACGCATTAATTTCCATTCTATTGTGGAAGCCAGCATGTCACAGTACTTAGCTTGTAACTCGGCAGTACGGCTTCACATTACTATTTCTAGTTTCTGGAGAGGAAAGGGACAGTCTTCTCTGAATTCGTGAGCTCTGAGTGGGAGATTTTTAGAGACACCAGAGTAGGTGGCTTAGGCTTGTGTATTTCTGCAACATTTCTAAAGTGACTCTGATTAAATCTACCAGTGTCTGGCTAAATGTGCATTCATTCACTCAAAATTACGCTTGCAAGCCTTTGTCATTGCCCAAGCAAACTAAATTCACAGAGTTTCCTTTCTAGATCCTATCTTTTATATAAGCAATAGCACTGGGAATATTCAAAGATCAAAAGACCTACCGTTCCCTTTTCTTCTGTAAAGGAATTGTGCTATTGGATGCTCTCCTTTTTTTTTATACTAAAGGAAAGGAGCTGTGTTGTATTTCATAGAATCATAGAATTGCTAAGGTTGGAAAAGACCCACAGGATGATCCAGTCCAACCATTCGCCCTCCACCAATGGTTCTCGCTAAACCATGTCCCTCTACACAGCATCCAAACGCTCTTTGAACACCACCAGGCTCGGTGACTCCACCACCTCACTGGGCAGCCCATTCCAGTGCCTGACCACCATTTGTACTATGCTTTGAGCTGTCCAGAAAAGTCTTAACAAATTGATGCAATCAGTGAAAATCAAATAGCAAAAGGAAGTAAATATTCAGCAGGAGTATAGGATGGTGAGGTGATAGGTTCAGTCCAGTGAGGACTGCATTTGTCAATGCTGGGCAGCAGAGCCCAGGTAGATGCATAAAGTCTTGAATAATGCATCTTTAATGCACCAGTTCCTGGAGCTTCAGAAAAGTATTGGCATGATTCTGCGTTGAAAGCCTGTGAACATCCATATCTCTTTTAGTACTCAGCGCTAGTTTGTATTTGTTGTTGTTCTCCTAAGTTTAGGAGTTTTCCCCCTTGACCTCTGTTGAACACTGAATGTTTACCATGATGATGGGCTGTGTCTCTGGCTAGAGGTGACCCTCACCCTCTCACTGTTCTGAATGCTCATTATCTACAAAACCCTCTGTAAAACAGCTATTTTTTTTCCTACAAAAGGAAGAATCTTCTGAAACTTAACTTTTGGAGAGCAAAAATGTCAACAGCTGCTGGAGAGGATACAGCCATGATCTAACAGAGAGGACAGGACCTCTGTAATCAAAAACATTTCCACAAGCTGGAATGCATTAACATAAGGGATAAAGGGTGACAGTGCTAATGCTCCTCTAACATGAGTTTTATTGGGCGAATGTGATTCTCGGGAACCACCCATGGTGTAAAGATATACGTTGTCTAGACATGCATTGTAGTAATTTACTTTTGTATAGTAATAGTACTTATAAATGATGCAGACATTCTGGACTAATTCATCTGAAGTATCTGTCAAAAATTTCCTTCTGCTTTGGAAGTTAATCCTCAGTAAGATCTACAGCCTGAACACCTGGAAGTAGTGTACTTACTGCTGTGTTCACCTTCCAGCTTCTGTCCAGTTTTAAAGTATACCCTGTAAACCTTTTTTTCTTGCTCGCCCTCAGGAAATCCAGATTTGAGGATTCACAATTTCTGTACCTTTTACTTTCTATGATTTTGGGGTATTCAGTGTTAAATGATTTTTAACATTCAAATTCTACAGCATTAGAGTGCCTTAATTTCCCAAGTGAGTGTCTGCTACCCTTTTTTCCTCCAGGAAAAGAGGAGAGAGTTAAGTTTCGGATGTGTTGCAGCTGGACTGTACTCAAACTGATGGGAATGCAGTGATAAGAGCCGAATAATTTGAATTTATTACATTTTTTTTCTTTCCCTGCTGCTGAGTGCTGCAGTAATTTCACTGAGCTCATACGTCCTTCCCAGTCTAACAAAATAAATGCACTGGAAAACATCTTATATAAAGTGGGACTAGCTAGGGAAGCAACTTCCAGTAGCCTATATGTGTTCAGTGCAAACAGAAAGTACTTGTGCTGCGGTTGAGCTAAAGGATTGCAGCTCTGGGAGGGCTGTTCTTTGCACCTTCAAAAGCTATAGCAAGTCCAATGCTTGAGGCTCAGCCCTGCCTTGACCCAGGGGGATCCATGTGGGAGGGGAAGGCAGTTCTTCCTGACTTTCCTCTCTCCCCTGTGGCTTCTGGGTAGGACCAACTTCTGTACTGACCAGGGTTATTGTGGCAGCACCCAAATAACTGCCCGCTGGCAGCAGCTTTACTGTGGCTGTAATATATGCCCTAGGCTGCAGGGGATTATGTGCAATGCAAACCACATGTAAGCATAGCTAAGTATTAAAGTTCTGTATGTTTTCATTTAG
Seq C2 exon
GAAATTAGCAAAAAACCTCATCCAAATGCTGCAAAATTGGAAGAAAACTTCAAACCATTACCAGACAAGAAGAAGTATCGGCACAGACCTGAACCTCTCTTCATACCTCCTCCTTCCTTCAACTTCAGCACGTCCCACTCTGGTGCCACGCTGTACCAGAGCCAGCTTCGCTCTCCCCGTGTCCTTGGAGACCATTTGCTGGACCGAACACACGAGCTCCCCCCCTACACTCCACCGCCAATGCTTAGTCCTGTTCGGCATGGATCTGGTCTCTTCAGTAGTGTTATCACATCATCTCATAGCACCGCGCACACTCAGCTGCCGCTCACTCCACTGACACCAACTCCACGGGTGCTCCTCTGTCGGTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009896:ENSGALT00000016090:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.892 A=NA C2=0.734
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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]