GgaINT0078878 @ galGal4
Intron Retention
Gene
ENSGALG00000009896 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr3:22216884-22219398:-
Coord C1 exon
chr3:22219029-22219398
Coord A exon
chr3:22216945-22219028
Coord C2 exon
chr3:22216884-22216944
Length
2084 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
GGGATTCTTTTCTGTTTCAGGTA
3' ss Score
10.81
Exon sequences
Seq C1 exon
GAAATTAGCAAAAAACCTCATCCAAATGCTGCAAAATTGGAAGAAAACTTCAAACCATTACCAGACAAGAAGAAGTATCGGCACAGACCTGAACCTCTCTTCATACCTCCTCCTTCCTTCAACTTCAGCACGTCCCACTCTGGTGCCACGCTGTACCAGAGCCAGCTTCGCTCTCCCCGTGTCCTTGGAGACCATTTGCTGGACCGAACACACGAGCTCCCCCCCTACACTCCACCGCCAATGCTTAGTCCTGTTCGGCATGGATCTGGTCTCTTCAGTAGTGTTATCACATCATCTCATAGCACCGCGCACACTCAGCTGCCGCTCACTCCACTGACACCAACTCCACGGGTGCTCCTCTGTCGGTCCA
Seq A exon
GTAAGTGTTATGTTCGGAGTGTGGCAGTTACGTAGTGAATACTGCTGTGCTCTTTTCTAGTGTTACCTCACTGAGGATTATACATGTACACGTGTGCATGGCTCATTATGTTACAATGCCATAAAAATCCACCTTTGTTTGTTTGTCCTGCGTTGGATTTTGTAGAGTTGGCATTGAAAGCATAAAATGAGTGGATAAGCCAAACCAGTGAATAAAGGTATGATTTTTCAATGGGGTCTGCCTCTGTAAGGACTGCATACAAACCTTTTCCTTCTGAAGTGGAAGGAAAATGTTTGCTTTGAGACACAGGAGTAATTTTCTGATTTTGTTCAATGCTTCACAAGGAAGGGGTGCCTAATCATACCTGATCATGGTAGTAGAAACCCGTGCAAGTTAAGATGTTTCTGATACCTATAGCAGTTTAGACTATTTCTATATCTAAATATTGAGAAAGGGTCATTTTTCCATAATAGAACAGAAGAATTTTCCCAGTAGAAAGAAAGTAGTGGCTACACTCTGAGTCTCTTCAGCCATGGTCACCAGACAATTGTATATTTTATCATAACAATGCCTTAGAGCTCCCACTGCCATTCTCTCAATTCATTTTTAGCTTTGTAAAATGAGCCAGTTACTAGAATGAAAACTCAAGAAGCAAGTTAAAAGTCCTACTCACCAGACCACCACCTCTGTCTTGTAATCCAGAAAAAGTGAAGCTCGTGTCATTTTTCTTGCTCTCCTCTTGGAAACTGATATCTGTCCTGTCATCAGAACCACTGACTTTAGAGTCAGCAACAGCCATGTGGCAAACTCTTATAACTAGTTCTGATTTGGTTTTAGCCCCTTTTCCTTTCTGTGGTGCAGAACTGCACCAATGCTTGACAAATGACAAAAAGGCATGAATTACCTATGCTGGGTAGCTTTTTCTTGGAGAGACCAAGGGTAAATGCCATAGCCTTATGTCATGCCCTGGGGAAGGCATAGATTCTGAGCTATGTTAGCCTCACAGATTTGTCTTAAAATCTCCTTCCTTCCTGCCTGCCTACTCTTTTTTGGAGCTATTTAGAAATTGGGATTGGCTATCTTCTCTTTCAGGAAGGTGGTCTGTGCGCAAATCTTTTCTGTTCTTTTAATGTCATTAAAATATAGTTGTTTCCTAAAAAAAACTGAAGCCAAGTGGAAACTCCTGACTGCACGGTTGGTTTTTTGGGGGGTTAGTAGGAGTGGAGGTGGAGGATACATTTTGATGCAAAATTTTTTACAGAACTATTTATTTTCACAAAAGACATTGTTGGTGTTTTAGTGAAAGGATGTTCTCAGAATACTAAGTGTTGGTACCTCTTACTTGCAGAGGTTATAGTTTTGAGTCAAGCAGGATGAAATCATAGGTTACAGAGAGAGAATTCCAGCAAAAACCTTTTTGTCTGTGGCAAACCAGTCCAGCAATGCTGTAGCAGTTACTGAAGGTATAACAAAGTTGTAACATTGATGGATACTGTCAGATGCAGGGGTGAGCCATTGCAAAGAGGCCTTACAGAGTTACAGTTCCATAGCCATGTAAACTTACAGCACACTGACTGAAAACTACCTCTTTTCCGATAGAAACAGGAAAACAGAACTAAAGTTATGTTTCAAAGAGAAGTGTATGTTGCTGATTTCTGTGTATGCAATTACAGGTCCAAATACCAAAATAAGGATTGCTTTAAGGTACCTAAAATATTGCGTGTGTTCCTTTGCATTCAGCTGTTTTACTGCCCTGACTAATGCAGAGCACAGAAAACTTTTAGTTGTTATTGATGCTATGACCTTTAAAGTGAGCTTGTTTTAACCTCCCGGCTGTTTCTTAATCCTATGTATTGTGCCTGATTGCTCTTTTACATGAGAAATATACCTGATTATGCATGAACAAGATGATTTTGAGCCAAACATATCCCAGGTGCTGCTGGCTGTCTCAGATGTACCCTGATGTCTGATTTCTGCAGGATGTTAATAGCAATGTGGTAACATAGCCTGGGAGGAGGAGCATCAGCAGGGATACAGTTGTTACCAAAATACTTTGTAAACTCGGGGATTCTTTTCTGTTTCAG
Seq C2 exon
GTAGCATTGATGGAAGTGTAATTCCAGTGACGCCTGGGCCTGGTGAACAGACTGTTGAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009896:ENSGALT00000016090:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.715 A=NA C2=0.698
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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]