GgaINT0058210 @ galGal3
Intron Retention
Gene
ENSGALG00000005716 | SBF2
Description
NA
Coordinates
chr5:10157882-10159392:+
Coord C1 exon
chr5:10157882-10157983
Coord A exon
chr5:10157984-10159206
Coord C2 exon
chr5:10159207-10159392
Length
1223 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
TATCCTTTTTTGTGATCTAGGTA
3' ss Score
10.56
Exon sequences
Seq C1 exon
CTTCACAGGATAATGCAGTTGGGTGTGATCATCTCTGAGCTCCTAGAGAATGGTTCTTCTGTTATGGTCTGCTTGGAAGATGGCTGGGATATTACTGCACAA
Seq A exon
GTAAGCTGCTATTAAAAACTTGAAATAATTAAATAGTAAGAAAAACACTAGGCAAGACTTTTTTATATGTAAGACTGATAATTTGATGTAAGATTAATAAAACTGTTGTGGCAGCAGAGAAGAGACTGGAATACATAAAATTTTGTGTTTACAATTTACTCCACAGAATTGTTCATTAAAATGTTTCAAAGGCCCTAATGGACTTAGAATTCTAAGGCTTATCTACAAGATCTGAGTTTCTGTACTTGATCATATCAAGAATGAAAGCCGAAAGCTGTCAGTATAGATTTTTTACCTTTTTAAACACGGTATACTTTAACACAGAAGGGAAGGAGAGGAATTCCTTCTTTGCTATTTGCTTTCCAGAAATGGAGTACATACAGAGAGAAAACTAACTTTGTGCCAAAGTGACAGTAATACACCTGTTGTAAGAACAGATTACTGGAACAGATAGCTTTGTGAAACATGCTATGAATTACACAATTGATGCCTCACTTAATGTGCACTGTGTTCATGTAATTGCTTCATAATCCAGAAGATAAACATAGATATCAATAATTCTAGTAAATAAAAGCATCGTGTACAGCCAGCATCCTGATCTCAGATAAATGGTATTGTAAGAGAATGTAGTAATCTTGGAATCATTGTCAAACAGTGAAGAGAAGAGAAAGGCACATACATAGCTGGAGGTGGGAGATGTCTGTGCTGCATTTTAAAATCTCCAGAGATGCTGTCTAGAAGAACAGGCTGAAATAGTCCGGTGAGGATCATAGCATGGCAACACTGCAAAAGCTGTAGAGTCATCCTCAGGACCAGTTCTTTAATTCTTTCTTTGCTGAGGTAGCCAGTGCTATTTTATAAATGGTATTTTATTAATTATTATTATTTTCTATTGTTTATTTTATTAATCAAAGTGGTTTTATTTCATATGGAATTCAAAATTGTTAAGCATTTTCGTGACTTCTGAATTCTGTAGTTGCACAGGTTTGACTTTAATGATTATCATTAAGACCCAATTTAATACTGCTCTTTCATGTGAGATCATATTTGCATTGTGTTATAAAAATATGTAACCTACCTGGTAAACTACTTGTAATTGAATTTCTATGTAGGCTTTTGTTTCTTTGAACTAGAAGCAGATGATTGAATATGTAAGTTACATAAAGTGGTTTTATTTTAACTTCTGTCATTCTTAACATGATATATCCTTTTTTGTGATCTAG
Seq C2 exon
GTAGTATCTCTGGTACAGTTACTCAGCGATCCCTTCTATAGAACACTTGAAGGCTTCCGAATGCTGGTGGAAAAAGAATGGCTCTCTTTTGGTCATAAATTCAGTCAGCGAAGTAATTTGACTCTAAATTGTCAGGGTAGTGGATTTGCACCTATTTTCTTACAGTTCTTAGACTGTGTGCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005716:ENSGALT00000009170:31
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:
PF066029=Myotub-related=FE(7.7=100)
A:
NA
C2:
PF066029=Myotub-related=FE(14.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACAGGATAATGCAGTTGGGTG
R:
CTGATGCACACAGTCTAAGAACTGT
Band lengths:
286-1509
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]